Structural Classification of Proteins

Class: All beta proteins

Lineage:

Root: scop
Class: All beta proteins [48724]

Folds:

Immunoglobulin-like beta-sandwich [48725] (28)
sandwich; 7 strands in 2 sheets; greek-key
some members of the fold have additional strands
1. Immunoglobulin [48726] (4)
  uperfamily
  1. V set domains (antibody variable domain-like) [48727] (90)
  2. C1 set domains (antibody constant domain-like) [48942] (70)
  3. C2 set domains [49142] (10)
  4. I set domains [49159] (53)
2. E set domains [81296] (23)
  "Early" Ig-like fold families possibly related to the immunoglobulin and/or fibronectin type III superfamilies
  uperfamily
  1. NF-kappa-B/REL/DORSAL transcription factors, C-terminal domain [81279] (10)
    subgroup of the larger IPT/TIG domain family
  2. E-set domains of sugar-utilizing enzymes [81282] (30)
    domains of unknown function associated with different type of catalytic domains in a different sequential location
    subgroup of the larger IPT/TIG domain family
  3. Other IPT/TIG domains [89191] (1)
    apart from the domains of transcription factors and sugar-utilizing enzymes
  4. Arthropod hemocyanin, C-terminal domain [81283] (2)
  5. Class II viral fusion proteins C-terminal domain [81284] (6)
  6. Cytomegalovirus protein US2 [81285] (1)
  7. Molybdenum-containing oxidoreductases-like dimerisation domain [81286] (2)
  8. ML domain [81287] (3)
    implicated in lipid recognition, particularly in the recognition of pathogen related products
  9. RhoGDI-like [81288] (3)
  10. Cytoplasmic domain of inward rectifier potassium channel [81966] (3)
  11. Transglutaminase N-terminal domain [81289] (4)
  12. Filamin repeat (rod domain) [81290] (4)
    Pfam 00630
  13. Arrestin/Vps26-like [81291] (2)
  14. Gingipain R (RgpB), C-terminal domain [81292] (1)
  15. Copper resistance protein C (CopC, PcoC) [81969] (2)
  16. Cellulosomal scaffoldin protein CipC, module x2.1 [81293] (1)
  17. Quinohemoprotein amine dehydrogenase A chain, domains 4 and 5 [81294] (2)
  18. Internalin Ig-like domain [81295] (3)
    truncated fold fused to an LRR domain
  19. SoxZ-like [141027] (1)
  20. Enterochelin esterase N-terminal domain-like [141030] (2)
    PfamB 013071
  21. AMPK-beta glycogen binding domain-like [158886] (3)
    lacks the N-terminal strand (A) and contains a beta-hairpin insertion in the C-terminal strand (G)
  22. Sec63 C-terminal domain-like [158893] (1)
    C-terminal part of Pfam 02889
  23. SVA-like [158896] (1)
    Pfam 05326
3. Fibronectin type III [49265] (1)
  uperfamily
  1. Fibronectin type III [49266] (53)
    Pfam 00041
4. PKD domain [49299] (1)
  uperfamily
  1. PKD domain [49300] (3)
    Pfam 00801
5. beta-Galactosidase/glucuronidase domain [49303] (1)
  uperfamily
  1. beta-Galactosidase/glucuronidase domain [49304] (5)
6. Transglutaminase, two C-terminal domains [49309] (1)
  uperfamily
  1. Transglutaminase, two C-terminal domains [49310] (4)
7. Cadherin-like [49313] (2)
  uperfamily
  1. Cadherin [49314] (4)
  2. Dystroglycan, N-terminal domain [110062] (1)
8. Actinoxanthin-like [49319] (1)
  uperfamily
  1. Actinoxanthin-like [49320] (5)
9. Cu,Zn superoxide dismutase-like [49329] (1)
  has additional strand at N-terminus
  uperfamily
  1. Cu,Zn superoxide dismutase-like [49330] (13)
10. CBD9-like [49344] (3)
  has additional strand at N-terminus; the active site in a similar topological location as the Cu,Zn SOD site
  uperfamily
  1. Cytochrome domain of cellobiose dehydrogenase [49345] (1)
  2. Family 9 carbohydrate-binding module, CBD9 [63677] (1)
  3. Glucodextranase, domain C [101533] (1)
11. Lamin A/C globular tail domain [74853] (1)
  uperfamily
  1. Lamin A/C globular tail domain [74854] (2)
12. Clathrin adaptor appendage domain [49348] (3)
  contains an additional N-terminal strand
  uperfamily
  1. Alpha-adaptin ear subdomain-like [49349] (2)
    ear domain consists of two different subdomains
  2. gamma-adaptin C-terminal appendage domain-like [74857] (3)
    consist of a single subdomain
  3. Coatomer appendage domain [101536] (2)
13. Integrin domains [69179] (1)
  uperfamily
  1. Integrin domains [69180] (2)
14. PapD-like [49354] (2)
  contains PP switch between strands D and C'
  uperfamily
  1. Pilus chaperone [49355] (5)
  2. MSP-like [49360] (5)
    Pfam 00635
15. Purple acid phosphatase, N-terminal domain [49363] (1)
  uperfamily
  1. Purple acid phosphatase, N-terminal domain [49364] (2)
16. Fungal immunomodulatory protein, FIP [101542] (1)
  uperfamily
  1. Fungal immunomodulatory protein, FIP [101543] (1)
17. Superoxide reductase-like [49367] (1)
  uperfamily
  1. Superoxide reductase-like [49368] (3)
    binds iron in the site that is topologically equivalent to the copper-binding site of cupredoxins
18. Thiol:disulfide interchange protein DsbD, N-terminal domain (DsbD-alpha) [74863] (1)
  uperfamily
  1. Thiol:disulfide interchange protein DsbD, N-terminal domain (DsbD-alpha) [74864] (1)
19. Invasin/intimin cell-adhesion fragments [49373] (1)
  uperfamily
  1. Invasin/intimin cell-adhesion fragments [49374] (2)
20. Antigen MPT63/MPB63 (immunoprotective extracellular protein) [81982] (1)
  uperfamily
  1. Antigen MPT63/MPB63 (immunoprotective extracellular protein) [81983] (1)
21. Tp47 lipoprotein, middle and C-terminal domains [81986] (1)
  uperfamily
  1. Tp47 lipoprotein, middle and C-terminal domains [81987] (1)
    contains two different domains of immunoglobulin-like fold
22. ASF1-like [101546] (1)
  contains extra C-terminal strand
  uperfamily
  1. ASF1-like [101547] (3)
23. ApaG-like [110069] (1)
  uperfamily
  1. ApaG-like [110070] (3)
    Pfam 04379; dimeric in crystals; this dimer is a probable biological unit
24. Accessory protein X4 (ORF8, ORF7a) [117066] (1)
  uperfamily
  1. Accessory protein X4 (ORF8, ORF7a) [117067] (1)
25. LEA14-like [117070] (1)
  uperfamily
  1. LEA14-like [117071] (1)
    Pfam 03168
26. ICP-like [141066] (1)
  topological variant with similarity to the Cupredoxin-like fold (scop_cf 49502) in the N-terminal region
  uperfamily
  1. ICP-like [141067] (2)
    PfamB 014070
27. CalX-like [141072] (1)
  uperfamily
  1. CalX-beta domain [141073] (1)
    Pfam 03160
28. NEAT domain-like [158911] (1)
  1. NEAT domain [158912] (3)
    Pfam 05031; iron transport-associated domain
Common fold of diphtheria toxin/transcription factors/cytochrome f [49379] (10)
sandwich; 9 strands in 2 sheet; greek-key; subclass of immunoglobin-like fold
1. Diphtheria toxin, C-terminal domain [49380] (1)
  uperfamily
  1. Diphtheria toxin, C-terminal domain [49381] (1)
2. Carbohydrate-binding domain [49384] (3)
  uperfamily
  1. Cellulose-binding domain family II [49385] (2)
  2. Cellulose-binding domain family III [49390] (11)
    Pfam 00963
  3. Bacterial chitobiase, n-terminal domain [49398] (1)
3. Bacterial adhesins [49401] (6)
  uperfamily
  1. Collagen-binding domain of adhesin [49402] (1)
  2. Fibrinogen-binding domain [89210] (2)
    duplication: contains two differently decorated domains of this fold
  3. Pilus subunits [49405] (8)
  4. PapG adhesin receptor-binding domain [63680] (1)
  5. F17c-type adhesin [89215] (2)
  6. Dr-family adhesin [110075] (1)
    Pfam 04619
4. Alpha-macroglobulin receptor domain [49410] (1)
  uperfamily
  1. Alpha-macroglobulin receptor domain [49411] (3)
5. p53-like transcription factors [49417] (7)
  uperfamily
  1. p53 DNA-binding domain-like [81314] (3)
  2. Rel/Dorsal transcription factors, DNA-binding domain [81315] (9)
  3. T-box [81316] (2)
  4. STAT DNA-binding domain [81317] (3)
  5. RUNT domain [81318] (2)
  6. DNA-binding domain from NDT80 [81992] (1)
  7. DNA-binding protein LAG-1 (CSL) [110080] (1)
6. Cytochrome f, large domain [49441] (1)
  uperfamily
  1. Cytochrome f, large domain [49442] (5)
7. beta-sandwich domain of Sec23/24 [81995] (1)
  uperfamily
  1. beta-sandwich domain of Sec23/24 [81996] (2)
8. Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor [49447] (1)
  duplication: one domain of this fold is inserted into another domain of the same fold
  uperfamily
  1. Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor [49448] (2)
9. Peptidylarginine deiminase Pad4, middle domain [110083] (1)
  uperfamily
  1. Peptidylarginine deiminase Pad4, middle domain [110084] (1)
10. DR1885-like metal-binding protein [110087] (1)
  uperfamily
  1. DR1885-like metal-binding protein [110088] (1)
    Pfam 04314
Prealbumin-like [49451] (7)
sandwich; 7 strands in 2 sheets, greek-key
variations: some members have additional 1-2 strands to common fold
1. Starch-binding domain-like [49452] (3)
  uperfamily
  1. Rhamnogalacturonase B, RhgB, middle domain [110091] (1)
  2. Starch-binding domain [49453] (8)
  3. PUD-like [158932] (4)
    Pfam 03714; bacterial pullanase-associated domain
2. Carboxypeptidase regulatory domain-like [49464] (2)
  uperfamily
  1. Carboxypeptidase regulatory domain [49465] (2)
  2. Pre-dockerin domain [141082] (1)
    PfamB 085396
3. VHL [49468] (1)
  uperfamily
  1. VHL [49469] (1)
4. Transthyretin (synonym: prealbumin) [49472] (1)
  uperfamily
  1. Transthyretin (synonym: prealbumin) [49473] (4)
5. Cna protein B-type domain [49478] (1)
  uperfamily
  1. Cna protein B-type domain [49479] (2)
    Pfam 05738
6. Aromatic compound dioxygenase [49482] (1)
  uperfamily
  1. Aromatic compound dioxygenase [49483] (6)
    sandwich; 9 strands in 2 sheets
7. Hypothetical protein PA1324 [117074] (1)
  uperfamily
  1. Hypothetical protein PA1324 [117075] (1)
HSP40/DnaJ peptide-binding domain [49492] (1)
sandwich; 6 strands in 2 sheets
1. HSP40/DnaJ peptide-binding domain [49493] (1)
  uperfamily
  1. HSP40/DnaJ peptide-binding domain [49494] (2)
Penicillin-binding protein associated domain [69188] (1)
sandwich; 6 strands in 2 sheets
1. Penicillin-binding protein associated domain [69189] (2)
  uperfamily
  1. PBP5 C-terminal domain-like [69190] (2)
  2. Pencillin binding protein 4 (PbpD), C-terminal domain [110098] (1)
    rudiment form of the PBP-5-like domain
alpha-Amylase inhibitor tendamistat [49497] (1)
sandwich; 6 strands in 2 sheets
1. alpha-Amylase inhibitor tendamistat [49498] (1)
  uperfamily
  1. alpha-Amylase inhibitor tendamistat [49499] (1)
C-terminal domain of mollusc hemocyanin [81278] (1)
six-stranded beta-sandwich, jelly-roll/greek-key topology
1. C-terminal domain of mollusc hemocyanin [81277] (1)
  analogous to the Ig-like domain of arthropod hemocyanin; similar sequential but different spatial position relative the shared domain
  uperfamily
  1. C-terminal domain of mollusc hemocyanin [81276] (2)
HPA-like [141085] (1)
sandwich, 6 strands in 2 sheets; jelly-roll (truncated); also includes the pending PCSK9 V domain-like superfamily (the C-terminal domains of 2p4e and 2pmw)
1. Agglutinin HPA-like [141086] (1)
  forms similar trimers to the PCSK9 V domain; strand directions of the subunit beta-sheets are parallel to the three-fold symmetry axis;
  uperfamily
  1. Agglutinin HPA-like [141087] (1)
L21p-like [141090] (1)
core: sandwich, 6 strands in 2 sheets
1. L21p-like [141091] (1)
  uperfamily
  1. Ribosomal protein L21p [141092] (3)
    Pfam 00829
Cupredoxin-like [49502] (2)
sandwich; 7 strands in 2 sheets, greek-key
variations: some members have additional 1-2 strands
1. Cupredoxins [49503] (7)
  contains copper-binding site
  uperfamily
  1. Plastocyanin/azurin-like [49504] (32)
    mono-domain proteins
  2. Nitrosocyanin [63392] (3)
  3. Periplasmic domain of cytochrome c oxidase subunit II [49541] (5)
  4. Multidomain cupredoxins [49550] (15)
  5. Ephrin ectodomain [74874] (2)
    eukaryotic signaling domain probably related to cupredoxins but lacking the metal-binding site
  6. Peptidylarginine deiminase Pad4, N-terminal domain [110107] (1)
    probably related to cupredoxins but lacking the metal-binding site
  7. SO1698-like [141095] (1)
    probably related to cupredoxins but lacking the metal-binding site
2. Major surface antigen p30, SAG1 [74877] (1)
  SS-crosslinked beta-sandwich of distinct geometry but topologically similar to cupredoxins
  uperfamily
  1. Major surface antigen p30, SAG1 [74878] (1)
Ctag/Cox11 [110110] (1)
sandwich; 7 strands in 2 sheets, greek-key; permutation of the immunoglobulin-like fold
1. Ctag/Cox11 [110111] (1)
  uperfamily
  1. Ctag/Cox11 [110112] (1)
    Pfam 04442
Atu1913-like [141098] (1)
sandwich; 7 strands in two sheets, greek-key/jelly-roll; forms segment swapped dimers, swapping is probably facilitated by the helix insertion after strand 3
1. Atu1913-like [141099] (1)
  uperfamily
  1. Atu1913-like [141100] (1)
C2 domain-like [49561] (5)
sandwich; 8 strands in 2 sheets; greek-key
1. C2 domain (Calcium/lipid-binding domain, CaLB) [49562] (2)
  two constituent families are related by circular permutation
  uperfamily
  1. PLC-like (P variant) [49563] (12)
  2. Synaptotagmin-like (S variant) [49575] (12)
    topologically similar to the C-terminal domain of PapD
2. Periplasmic chaperone C-domain [49584] (1)
  uperfamily
  1. Periplasmic chaperone C-domain [49585] (5)
3. PHL pollen allergen [49590] (1)
  uperfamily
  1. PHL pollen allergen [49591] (2)
4. Rab geranylgeranyltransferase alpha-subunit, insert domain [49594] (1)
  uperfamily
  1. Rab geranylgeranyltransferase alpha-subunit, insert domain [49595] (1)
5. Smr-associated domain-like [158949] (1)
  1. Smr-associated domain [158950] (1)
    Pfam 09640; DUF2027
TRAF domain-like [49598] (1)
sandwich; 8 strands in 2 sheets; greek-key
1. TRAF domain-like [49599] (2)
  has a circularly permuted immunoglobulin-fold topology with extra strand
  uperfamily
  1. MATH domain [49600] (4)
  2. SIAH, seven in absentia homolog [69198] (1)
Neurophysin II [49605] (1)
sandwich; 8 strands in 2 sheets; meander
1. Neurophysin II [49606] (1)
  duplication: composed of two structural repeats
  uperfamily
  1. Neurophysin II [49607] (1)
N-utilization substance G protein NusG, insert domain [82003] (1)
sandwich; 8 strands in 2 sheets; meander
1. N-utilization substance G protein NusG, insert domain [82004] (1)
  uperfamily
  1. N-utilization substance G protein NusG, insert domain [82005] (1)
Nucleoplasmin-like/VP (viral coat and capsid proteins) [88632] (7)
sandwich; 8 strands in 2 sheets; jelly-roll; some members can have additional 1-2 strands
characteristic interaction between the domains of this fold allows the formation of five-fold and pseudo six-fold assemblies
1. Nucleoplasmin-like core domain [69203] (1)
  oligomerizes into a pentameric ring structure
  uperfamily
  1. Nucleoplasmin-like core domain [69204] (3)
2. Positive stranded ssRNA viruses [88633] (9)
  uperfamily
  1. Picornaviridae-like VP (VP1, VP2, VP3 and VP4) [88634] (18)
    the order of the chains N-VP0-VP3-VP1-C is as in the polyprotein; VP0 is cleaved later upon capsid assembly to VP4 and VP2
    there is a different order in the shuffled genome of insect picorna-like proteins (Cricket paralysis virus)
  2. Comoviridae-like VP [88636] (3)
    duplication: mature coat protein consists of three similar domains that can be in a single chain or in two separate chains
  3. Caliciviridae-like VP [88637] (1)
  4. Nodaviridae-like VP [88638] (3)
  5. Tetraviridae-like VP [101568] (1)
  6. Bromoviridae-like VP [88639] (4)
  7. Tymoviridae-like VP [88641] (3)
  8. Tombusviridae-like VP [88643] (7)
  9. Birnaviridae-like VP [141109] (1)
    dsRNA virus but unlike the other dsRNA viruses has a genomic arrangement and genomic replication strategy similar to +sRNA viruses; includes Pfam 01766; Birnavirus VP2 protein
3. ssDNA viruses [88645] (3)
  uperfamily
  1. Microviridae-like VP [49612] (3)
  2. Parvoviridae-like VP [88646] (7)
  3. Densovirinae-like VP [88647] (1)
4. Group I dsDNA viruses [88648] (1)
  uperfamily
  1. Papovaviridae-like VP [88649] (3)
5. Group II dsDNA viruses VP [49749] (3)
  duplication: consists of two domains of this fold packed together like the nucleoplasmin subunits
  trimeric; in the trimers, the domains are arranged around pseudo six-fold axis
  uperfamily
  1. Coat protein p3 [49750] (1)
  2. Major capsid protein vp54 [82013] (1)
  3. Adenovirus hexon [49753] (2)
    each domain is heavily decorated with many insertions
6. Satellite viruses [88650] (1)
  uperfamily
  1. Satellite viruses [88651] (3)
7. PHM/PNGase F [49742] (2)
  members of this superfamily bind peptide substrates
  duplication: consists of two domains of this fold packed together like the adjacent nucleoplasmin subunits
  uperfamily
  1. Glycosyl-asparaginase [49743] (1)
  2. Peptidylglycine alpha-hydroxylating monooxygenase, PHM [49746] (1)
gamma-Crystallin-like [49694] (1)
sandwich; 8 strands in 2 sheets; greek-key
duplication: has internal pseudo twofold symmetry
1. gamma-Crystallin-like [49695] (6)
  uperfamily
  1. Crystallins/Ca-binding development proteins [49696] (13)
  2. Yeast killer toxin [49710] (1)
  3. Streptomyces metalloproteinase inhibitor, SMPI [49713] (1)
  4. Killer toxin-like protein SKLP [49716] (1)
  5. Antifungal protein AFP1 [63693] (1)
    shares putative chitin-binding site with SKLP
  6. Plant antimicrobial protein MIAMP1 [49719] (1)
Lipase/lipooxygenase domain (PLAT/LH2 domain) [49722] (1)
sandwich; 8 strands in 2 sheets; complex topology
duplication: has weak internal pseudo twofold symmetry
1. Lipase/lipooxygenase domain (PLAT/LH2 domain) [49723] (3)
  uperfamily
  1. Lipoxigenase N-terminal domain [49724] (3)
  2. Colipase-binding domain [49730] (6)
  3. Alpha-toxin, C-terminal domain [49738] (2)
Calpain large subunit, middle domain (domain III) [49757] (1)
sandwich; 8 strands in 2 sheets; jelly-roll
1. Calpain large subunit, middle domain (domain III) [49758] (1)
  uperfamily
  1. Calpain large subunit, middle domain (domain III) [49759] (3)
Supernatant protein factor (SPF), C-terminal domain [101575] (1)
sandwich; 8 strands in 2 sheets; jelly-roll; similarity to the Nucleoplasmin-like/VP fold
1. Supernatant protein factor (SPF), C-terminal domain [101576] (1)
  uperfamily
  1. Supernatant protein factor (SPF), C-terminal domain [101577] (1)
Hypothetical protein TM1070 [89231] (1)
sandwich; 8 strands in 2 sheets; jelly-roll
1. Hypothetical protein TM1070 [89232] (1)
  uperfamily
  1. Hypothetical protein TM1070 [89233] (1)
Olfactory marker protein [63696] (1)
sandwich; 8 strands in 2 sheets; jelly-roll
1. Olfactory marker protein [63697] (1)
  uperfamily
  1. Olfactory marker protein [63698] (2)
HSP20-like chaperones [49763] (1)
sandwich; 8 strands in 2 sheets; greek-key
1. HSP20-like chaperones [49764] (4)
  uperfamily
  1. HSP20 [49765] (2)
  2. Co-chaperone p23-like [49768] (2)
  3. GS domain [101580] (2)
    Pfam 04969
  4. Nuclear movement domain [117092] (2)
    Pfam 03593
Heat shock protein 70kD (HSP70), peptide-binding domain [100919] (1)
beta-sandwich: 8 strands in 2 sheets
1. Heat shock protein 70kD (HSP70), peptide-binding domain [100920] (1)
  uperfamily
  1. Heat shock protein 70kD (HSP70), peptide-binding domain [100921] (4)
Ecotin, trypsin inhibitor [49771] (1)
sandwich; 8 strands in 2 sheets; complex topology with the crossing loops
1. Ecotin, trypsin inhibitor [49772] (1)
  uperfamily
  1. Ecotin, trypsin inhibitor [49773] (1)
PEBP-like [49776] (1)
sandwich; 8 strands in 2 sheets; greek-key: partial topological similarity to immunoglobulin-like folds
1. PEBP-like [49777] (2)
  uperfamily
  1. Phosphatidylethanolamine binding protein [49778] (5)
  2. Prokaryotic PEBP-like proteins [63701] (2)
Ganglioside M2 (gm2) activator [63706] (1)
sandwich; 8 strands in 2 sheets; greek-key: partial topological similarity to immunoglobulin-like folds
1. Ganglioside M2 (gm2) activator [63707] (1)
  uperfamily
  1. Ganglioside M2 (gm2) activator [63708] (1)
Nicotinic receptor ligand binding domain-like [63711] (1)
sandwich; 8 strands in 2 sheets; greek-key: partial topological similarity to immunoglobulin-like folds
1. Nicotinic receptor ligand binding domain-like [63712] (1)
  uperfamily
  1. Nicotinic receptor ligand binding domain-like [63713] (1)
Beta-galactosidase LacA, domain 3 [117099] (1)
sandwich; 8 strands in 2 sheets
1. Beta-galactosidase LacA, domain 3 [117100] (1)
  uperfamily
  1. Beta-galactosidase LacA, domain 3 [117101] (1)
Galactose-binding domain-like [49784] (1)
sandwich; 9 strands in 2 sheets; jelly-roll
1. Galactose-binding domain-like [49785] (32)
  uperfamily
  1. Galactose-binding domain [49786] (4)
  2. Discoidin domain (FA58C, coagulation factor 5/8 C-terminal domain) [49791] (4)
  3. APC10-like [69210] (3)
    Pfam 03256
  4. delta-Endotoxin, C-terminal domain [49796] (4)
  5. Ephrin receptor ligand binding domain [49800] (2)
  6. beta-Galactosidase/glucuronidase, N-terminal domain [49803] (5)
  7. Chondroitin ABC lyase I, N-terminal domain [89236] (1)
  8. CBM4/9 [74893] (3)
  9. Family 6 carbohydrate binding module, CBM6 [69213] (4)
  10. CBM15 [69216] (1)
  11. Family 17 carbohydrate binding module, CBM17 [69219] (1)
  12. CBM22 [49811] (1)
    CBM family 22, formerly x6b domain
  13. Family 27 carbohydrate binding module, CBM27 [89241] (2)
  14. Family 29 carbohydrate binding module, CBM29 [89244] (1)
  15. Fucose binding lectin [74896] (1)
  16. N-terminal domain of xrcc1 [49814] (1)
  17. F-box associated region, FBA [101585] (1)
  18. Allantoicase repeat [101588] (1)
  19. PepX C-terminal domain-like [69222] (4)
  20. PA-IL, galactose-binding lectin 1 [82022] (1)
    a truncated form of this fold lacking one of the N-terminal strands
  21. Proprotein convertase P-domain [89249] (3)
    a truncated form of this fold lacking one of the N-terminal strands
  22. Family 28 carbohydrate binding module, CBM28 [110122] (1)
  23. Family 30 carbohydrate binding module, CBM30 (PKD repeat) [110125] (1)
  24. Rhamnogalacturonase B, RhgB, C-terminal domain [110128] (1)
  25. Hypothetical protein AT3g04780/F7O18_27 [117108] (1)
    Pfam 06201; DUF1000
  26. Beta-galactosidase LacA, domains 4 and 5 [117111] (1)
    duplication: tandem repeat of two similar domains; some sequence similarity to the beta-Galactosidase/glucuronidase N-terminal domain (scop_fa 49803)
  27. Family 36 carbohydrate binding module, CBM36 [117114] (1)
  28. Extended PAW domain [141113] (1)
    single domain; the N-terminal half is covered by Pfam 04721; DUF750 (Smart 00613; PAW), the C-terminal half by PfamB 028386
  29. CBM11 [141116] (1)
    Pfam 03425; Carbohydrate binding domain (family 11)
  30. beta-mannanase CBM [141119] (1)
  31. YxiM N-terminal domain-like [158963] (1)
    PfamB 038265
  32. NPCBM-like [158966] (2)
    Pfam 08305
Viral protein domain [49817] (1)
sandwich; 9 strands in 2 sheets; jelly-roll; form trimers
1. Viral protein domain [49818] (3)
  forms homotrimers
  uperfamily
  1. Top domain of virus capsid protein [49819] (4)
    this domain is inserted into a multihelical domain
  2. Influenza hemagglutinin headpiece [49823] (1)
  3. Hemagglutinin domain of haemagglutinin-esterase-fusion glycoprotein HEF1 [49826] (1)
Calcium-mediated lectin [82025] (1)
sandwich; 9 strands in 2 sheets; greek-key
1. Calcium-mediated lectin [82026] (1)
  uperfamily
  1. Calcium-mediated lectin [82027] (2)
Dextranase, N-terminal domain [101595] (1)
sandwich; 9 strands in 2 sheets; greek-key
1. Dextranase, N-terminal domain [101596] (1)
  uperfamily
  1. Dextranase, N-terminal domain [101597] (1)
Smp-1-like [101600] (1)
sandwich; 9 strands in 2 sheets; greek-key/jelly-roll
1. Smp-1-like [101601] (1)
  uperfamily
  1. Smp-1-like [101602] (2)
Superantigen (mitogen) Ypm [101605] (1)
sandwich; 9 strands in 2 sheets; jelly-roll
1. Superantigen (mitogen) Ypm [101606] (1)
  uperfamily
  1. Superantigen (mitogen) Ypm [101607] (1)
ENV polyprotein, receptor-binding domain [49829] (1)
sandwich; 9 strands in 2 sheets; greek-key; contains a few helices in loop regions
1. ENV polyprotein, receptor-binding domain [49830] (1)
  uperfamily
  1. ENV polyprotein, receptor-binding domain [49831] (2)
BTV NS2-like ssRNA-binding domain [110131] (1)
sandwich; 9 strands in 2 sheets; unusual topology with 2 crossover loops
1. BTV NS2-like ssRNA-binding domain [110132] (1)
  uperfamily
  1. BTV NS2-like ssRNA-binding domain [110133] (1)
    N-terminal half of Pfam 04514
WSSV envelope protein-like [158973] (1)
beta-sandwich; 9 strands in 2 sheets; greek-key
1. WSSV envelope protein-like [158974] (1)
  1. WSSV envelope protein-like [158975] (2)
Virus attachment protein globular domain [49834] (1)
sandwich, 10 strands in 2 sheets; greek-key
1. Virus attachment protein globular domain [49835] (3)
  uperfamily
  1. Adenovirus fiber protein "knob" domain [49836] (7)
  2. Reovirus attachment protein sigma 1 head domain [69225] (1)
  3. Lactophage receptor-binding protein head domain [141122] (2)
TNF-like [49841] (1)
sandwich, 10 strands in 2 sheets; jelly-roll
1. TNF-like [49842] (1)
  uperfamily
  1. TNF-like [49843] (18)
CUB-like [49853] (3)
sandwich, 10 strands in 2 sheets; jelly-roll
1. Spermadhesin, CUB domain [49854] (1)
  uperfamily
  1. Spermadhesin, CUB domain [49855] (6)
2. Collagen-binding domain [89260] (1)
  N-terminal strand appears only in calcium-free form
  uperfamily
  1. Collagen-binding domain [89261] (1)
3. Acetamidase/Formamidase-like [141130] (1)
  decorated fold with additional structures; contains extra C-terminal alpha+beta subdomain: beta(2)-alpha(2)-beta(2): antiparallel beta-sheet, order 1243
  uperfamily
  1. Acetamidase/Formamidase-like [141131] (1)
    Pfam 03069
Hyaluronate lyase-like, C-terminal domain [49862] (1)
sandwich, 10 strands in 2 sheets; "folded meander"
1. Hyaluronate lyase-like, C-terminal domain [49863] (1)
  uperfamily
  1. Hyaluronate lyase-like, C-terminal domain [49864] (6)
Cytolysin/lectin [63723] (1)
sandwich, 10 strands in 2 sheets;
1. Cytolysin/lectin [63724] (2)
  some topological similarity to osmotin
  uperfamily
  1. Anemone pore-forming cytolysin [63725] (2)
    Pfam 06369
  2. Fungal fruit body lectin [117119] (2)
    Pfam 07367
Putative glucosidase YicI, C-terminal domain [117124] (1)
sandwich; 10 strands in two sheets
1. Putative glucosidase YicI, C-terminal domain [117125] (1)
  uperfamily
  1. Putative glucosidase YicI, C-terminal domain [117126] (1)
CsrA-like [117129] (1)
sandwich; 10 strands in 2 sheets; intertwined dimer (segment-swapped, 5-stranded greek-key sandwich?)
1. CsrA-like [117130] (1)
  uperfamily
  1. CsrA-like [117131] (1)
    Pfam 02599
Osmotin, thaumatin-like protein [49869] (1)
sandwich; 11 strands in 2 sheets
1. Osmotin, thaumatin-like protein [49870] (1)
  has two smaller insertion domains
  uperfamily
  1. Osmotin, thaumatin-like protein [49871] (4)
SMAD/FHA domain [49878] (1)
sandwich; 11 strands in 2 sheets; greek-key
1. SMAD/FHA domain [49879] (4)
  has a few short helices inserted in loops
  uperfamily
  1. SMAD domain [49880] (4)
  2. FHA domain [49885] (12)
  3. Interferon regulatory factor 3 (IRF3), transactivation domain [101630] (1)
    weak sequence similarity to SMAD domain
  4. EssC N-terminal domain-like [141143] (1)
    PfamB 051221 covers two consecutive domains; the first one is of canonical topology, whereas the second domain has a cirular permutation, beginnig at strand 2 and ending at strand 1 of the canonical fold
Soluble secreted chemokine inhibitor, VCCI [49888] (1)
sandwich; 11 strands in 2 sheets; greek-key
1. Soluble secreted chemokine inhibitor, VCCI [49889] (1)
  uperfamily
  1. Soluble secreted chemokine inhibitor, VCCI [49890] (1)
Baculovirus p35 protein [49893] (1)
sandwich; 14 strands in 2 sheets; greek-key
1. Baculovirus p35 protein [49894] (1)
  has a few helices inserted in loops
  uperfamily
  1. Baculovirus p35 protein [49895] (1)
Concanavalin A-like lectins/glucanases [49898] (1)
sandwich; 12-14 strands in 2 sheets; complex topology
1. Concanavalin A-like lectins/glucanases [49899] (25)
  uperfamily
  1. Legume lectins [49900] (28)
  2. Lectin leg-like [74904] (3)
    mammalian protein related to legume lectins
  3. Glycosyl hydrolases family 16 [49925] (8)
    Pfam 00722
    beta-Glucanase-like
  4. Galectin (animal S-lectin) [49932] (11)
  5. Laminin G-like module [49944] (7)
  6. Thrombospondin C-terminal domain [101643] (1)
    Pfam 05735
  7. Pentraxin (pentaxin) [49951] (2)
  8. Calnexin/calreticulin [69236] (1)
  9. vp4 sialic acid binding domain [74907] (1)
  10. Hypothetical protein YesU [101646] (1)
  11. Alginate lyase [101649] (3)
    members have same function and similar structures but low sequence similarity
  12. Clostridium neurotoxins, the second last domain [49956] (3)
  13. Exotoxin A, N-terminal domain [49962] (1)
  14. Vibrio cholerae sialidase, N-terminal and insertion domains [49965] (1)
  15. Leech intramolecular trans-sialidase, N-terminal domain [49968] (1)
  16. Trypanosoma sialidase, C-terminal domain [82038] (2)
  17. Glycosyl hydrolase family 7 catalytic core [49971] (6)
    contains many insertions in the common fold
  18. Glycosyl hydrolases family 32 C-terminal domain [101652] (2)
    Pfam 08244
    flat sheet beta-sandwich lacking the characteristic beta-bulge in the C-terminal strand
  19. Xylanase/endoglucanase 11/12 [49978] (24)
  20. Peptidase A4 [101656] (2)
    circular permutation of the canonical fold
  21. Alpha-L-arabinofuranosidase B, N-terminal domain [110143] (1)
  22. SPRY domain [141154] (5)
    Pfam 00622
  23. Beta-D-xylosidase C-terminal domain-like [141161] (4)
  24. SO2946-like [141167] (1)
  25. MAM domain [141170] (1)
    Pfam 00629
Supersandwich [49993] (3)
sandwich; 18 strands in 2 sheets
1. Galactose mutarotase-like [74650] (11)
  probable carbohydrate-binding domain in enzymes acting on sugars
  uperfamily
  1. Aldose 1-epimerase (mutarotase) [74911] (4)
  2. Hypothetical protein HI1317 [89279] (1)
  3. beta-Galactosidase, domain 5 [49995] (2)
  4. Hyaluronate lyase-like, central domain [50006] (6)
  5. Glycosyltransferase family 36 N-terminal domain [63733] (2)
    overall domain organization is similar to Bacterial glucoamylase
  6. Bacterial glucoamylase N-terminal domain-like [82042] (2)
    overall domain organization is similar to Lactobacillus maltose phosphorylase
  7. 4-alpha-glucanotransferase, C-terminal domain [89286] (1)
    family 57 glycoside hydrolase; overall domain organization is similar to that of the alpha-mannosidase family
  8. alpha-mannosidase, C-terminal domain [88656] (2)
    family 38 glycoside hydrolase; overall domain organization is similar to that of the 4-alpha-glucanotransferase family
    the supersandwich domain is elaborated with additional beta-strands and beta-sandwich subdomains
  9. MdoG-like [110148] (1)
    Pfam 04349; Pfam coverage extends to the C-terminal immunoglobulin-like domain
  10. Rhamnogalacturonase B, RhgB, N-terminal domain [110151] (1)
  11. YicI N-terminal domain-like [117139] (2)
2. V-region of surface antigen I/II (SA I/II, PAC) [74914] (1)
  uperfamily
  1. V-region of surface antigen I/II (SA I/II, PAC) [74915] (1)
3. Amine oxidase catalytic domain [49998] (1)
  uperfamily
  1. Amine oxidase catalytic domain [49999] (5)
Leukotriene A4 hydrolase N-terminal domain [63736] (1)
duplication: two beta-sandwiches of similar topologies are fused together in a single three beta-sheet domain
1. Leukotriene A4 hydrolase N-terminal domain [63737] (1)
  uperfamily
  1. Leukotriene A4 hydrolase N-terminal domain [63738] (1)
EV matrix protein [50011] (1)
consists of two beta-sandwich domains of similar topologies
1. EV matrix protein [50012] (1)
  uperfamily
  1. EV matrix protein [50013] (1)
Viral chemokine binding protein m3 [82045] (1)
consists of two different beta-sandwich domains of partial topological similarity to immunoglobulin-like folds
1. Viral chemokine binding protein m3 [82046] (1)
  uperfamily
  1. Viral chemokine binding protein m3 [82047] (1)
gp9 [50016] (1)
consists of two different beta-sandwich domains unrelated to other beta-sandwich folds
1. gp9 [50017] (1)
  uperfamily
  1. gp9 [50018] (1)
Flagellar hook protein flgE [117142] (1)
consists of two different domains; d1: [complex fold made of bifurcated beta-sheets]; d2 (inserted into d1): [beta-sandwich; 8 strands in 2 sheets]
1. Flagellar hook protein flgE [117143] (1)
  uperfamily
  1. Flagellar hook protein flgE [117144] (1)
ISP domain [50021] (1)
consists of two all-beta subdomains: conserved small domain has a rubredoxin-like fold; larger domain consists of 6 beta-stands packed in either sandwich of two 3-stranded sheets or closed barrel (n=6; S=8)
1. ISP domain [50022] (3)
  uperfamily
  1. Rieske iron-sulfur protein (ISP) [50023] (11)
  2. Ring hydroxylating alpha subunit ISP domain [50033] (7)
  3. NirD-like [158991] (3)
    retains the common fold but lacks the Fe-S cluster
Trm112p-like [158996] (1)
similar to the small domain of the ISP (scop_cf 50021)
1. Trm112p-like [158997] (1)
  possibly have evolved from a metal ion (or cofactor)-binding protein of a rubredoxin-like fold; in the known members, from one to three of the four metal-binding positions are occupied by cysteine residues
  1. Trm112p-like [158998] (3)
    Pfam 03966; previously DUF343
YopX-like [159005] (1)
consists of two domains: the N-terminal dimerisation domain of variable structure and the C-terminal domain with similarity to the SH3-like fold
1. YopX-like [159006] (1)
  conmrises proteins of plasmid and phage origins
  1. YopX-like [159007] (3)
    Pfam 09643
Obg-fold [82050] (1)
this fold is formed by three glycine-rich regions inserted into a small 8-stranded beta-sandwich
these regions form six left-handed collagen-like helices packed and H-bonded together
1. Obg GTP-binding protein N-terminal domain [82051] (1)
  uperfamily
  1. Obg GTP-binding protein N-terminal domain [82052] (2)
SH3-like barrel [50036] (21)
barrel, partly opened; n*=4, S*=8; meander
the last strand is interrupted by a turn of 3-10 helix
1. C-terminal domain of transcriptional repressors [50037] (3)
  the N-terminal domains of these repressors bind DNA
  uperfamily
  1. Biotin repressor (BirA) [50038] (2)
  2. FeoA-like [50041] (4)
  3. Transcriptional repressor protein KorB [69242] (1)
2. SH3-domain [50044] (1)
  uperfamily
  1. SH3-domain [50045] (48)
3. Prokaryotic SH3-related domain [82057] (4)
  uperfamily
  1. GW domain [82058] (1)
  2. PhnA-like [141190] (2)
    Pfam 03831
  3. Spr N-terminal domain-like [141195] (1)
  4. Ply C-terminal domain-like [141198] (1)
    duplication: tandem repeat of two SH3-like domains swapped with the N-terminal strands; non-overlapping parts of sequence are covered by PfamB 062324 and PfamB 020199
4. Myosin S1 fragment, N-terminal domain [50084] (1)
  uperfamily
  1. Myosin S1 fragment, N-terminal domain [50085] (4)
5. Tudor/PWWP/MBT [63748] (4)
  uperfamily
  1. Tudor domain [63749] (7)
    Pfam 00567
  2. PWWP domain [69250] (6)
    includes the C-terminal all-alpha subdomain
  3. MBT repeat [89299] (4)
    Pfam 02820
    contains extended 'arm', N-terminal to the common fold core
  4. CPH domain [159021] (1)
6. Chromo domain-like [54160] (3)
  SH3-like barrel is capped by a C-terminal helix
  uperfamily
  1. "Histone-like" proteins from archaea [54161] (2)
  2. Chromo domain [54165] (10)
    lacks the SH3-like barrel first strand that can be complemented by bound peptide ligand; in shadow chromo domain the corresponding site is altered by insertion; similarity to the IL8-like fold
  3. Chromo barrel domain [117157] (3)
    typical SH3-like barrel fold; similar sequence motif to the canonical chromo domain
7. BAH domain [82061] (1)
  uperfamily
  1. BAH domain [82062] (1)
8. PAZ domain [101690] (1)
  uperfamily
  1. PAZ domain [101691] (5)
9. Cap-Gly domain [74924] (1)
  uperfamily
  1. Cap-Gly domain [74925] (12)
    Pfam 01302
10. Electron transport accessory proteins [50090] (4)
  uperfamily
  1. R67 dihydrofolate reductase [50091] (1)
  2. Photosystem I accessory protein E (PsaE) [50094] (4)
  3. Ferredoxin thioredoxin reductase (FTR), alpha (variable) chain [50098] (1)
  4. Nitrile hydratase beta chain [50101] (3)
    contains irregular array of helices in the N-terminal extension
11. Translation proteins SH3-like domain [50104] (7)
  many known members contain KOW motif
  uperfamily
  1. Ribosomal proteins L24p and L21e [50105] (5)
  2. eIF5a N-terminal domain-like [50110] (7)
  3. C-terminal domain of ribosomal protein L2 [50114] (5)
  4. N-utilization substance G protein NusG, C-terminal domain [82072] (2)
  5. SPT5 KOW domain-like [141242] (1)
    part of Pfam 00467
  6. Ribosomal protein L19 [141245] (3)
    Pfam 01245
  7. Ribosomal protein L14e [159031] (1)
    PfamB 032577
12. Cell growth inhibitor/plasmid maintenance toxic component [50118] (3)
  contains insert beta-sheet subdomain and C-terminal helix
  uperfamily
  1. CcdB [50119] (1)
  2. Kid/PemK [82075] (3)
  3. Rv2302-like [141248] (1)
    different orientation for the extra C-terminal helix relative the SH3-like barrel
13. Fumarylacetoacetate hydrolase, FAH, N-terminal domain [63433] (1)
  uperfamily
  1. Fumarylacetoacetate hydrolase, FAH, N-terminal domain [63434] (1)
    contains 5 short helices in the loop between the third and fourth strands
14. DNA-binding domain of retroviral integrase [50122] (1)
  uperfamily
  1. DNA-binding domain of retroviral integrase [50123] (3)
15. Hypothetical protein YfhH [101697] (1)
  contains extra N-terminal all-alpha subdomain
  uperfamily
  1. Hypothetical protein YfhH [101698] (1)
16. Kinase-associated protein B-like [141251] (1)
  contains extra C-terminal alpha-hairpin
  uperfamily
  1. Kinase-associated protein B-like [141252] (1)
17. YccV-like [141255] (1)
  contains extra C-terminal helix packed against barrel
  uperfamily
  1. YccV-like [141256] (1)
18. CarD-like [141259] (1)
  uperfamily
  1. CarD-like [141260] (1)
    Pfam 02559
19. Mib/herc2 domain-like [159034] (1)
  1. Mib/herc2 domain [159035] (1)
    Pfam 06701
20. YorP-like [159038] (1)
  1. YorP-like [159039] (1)
    Pfam 09629
21. Plus3-like [159042] (1)
  1. Plus3 [159043] (1)
    Pfam 03126
GroES-like [50128] (2)
contains barrel, partly opened; n*=4, S*=8; meander
1. GroES-like [50129] (2)
  uperfamily
  1. GroES [50130] (5)
  2. Alcohol dehydrogenase-like, N-terminal domain [50136] (27)
    C-terminal domain is alpha/beta (classical Rossmann-fold)
2. SacY-like RNA-binding domain [50151] (1)
  uperfamily
  1. BglG-like antiterminator proteins [50152] (2)
PDZ domain-like [50155] (1)
contains barrel, partly opened; n*=4, S*=8; meander; capped by alpha-helix
1. PDZ domain-like [50156] (6)
  peptide-binding domain
  uperfamily
  1. PDZ domain [50157] (55)
    Pfam 00595
  2. Tail specific protease PDZ domain [68933] (2)
  3. HtrA-like serine proteases [74933] (4)
  4. Interleukin 16 [50172] (1)
  5. EpsC C-terminal domain-like [159046] (1)
    PfamB 005596
  6. MTH1368 C-terminal domain-like [159049] (1)
    middle part of Pfam 02163
N-terminal domains of the minor coat protein g3p [50175] (1)
core: barrel, in some members open; n*=4, S*=8; meander
1. N-terminal domains of the minor coat protein g3p [50176] (1)
  uperfamily
  1. N-terminal domains of the minor coat protein g3p [50177] (2)
Sm-like fold [50181] (5)
core: barrel, open; n*=4, S*=8; meander; SH3-like topology
1. Sm-like ribonucleoproteins [50182] (6)
  uperfamily
  1. Sm motif of small nuclear ribonucleoproteins, SNRNP [50183] (13)
    forms homo and heteroheptameric ring structures
  2. Pleiotropic translational regulator Hfq [74939] (3)
    forms homohexameric ring structures
  3. Mechanosensitive channel protein MscS (YggB), middle domain [82090] (1)
  4. PF1955-like [141294] (1)
    homohexadecameric assembly: two stacked octameric rings
  5. LSM14 N-terminal domain-like [141297] (1)
  6. YgdI/YgdR-like [159052] (6)
    Pfam 06004; DUF903, putative lipoprotein; both homohexameric and homoheptameric ring assemblies are observed in the crystals
2. YhbC-like, C-terminal domain [74942] (1)
  uperfamily
  1. YhbC-like, C-terminal domain [74943] (1)
3. GatD N-terminal domain-like [141300] (1)
  uperfamily
  1. GatD N-terminal domain-like [141301] (2)
    PfamB 010580
4. Dom34/Pelota N-terminal domain-like [159065] (1)
  1. Dom34/Pelota N-terminal domain-like [159066] (2)
    Warning: Pfam incorrectly assigns this domain to the same family as the structurally unrelated N-terminal domain of eRF1 (Pfam 03463)
5. TrmB C-terminal domain-like [159071] (1)
  sugar-binding domain; permuted OB-fold?
  1. TrmB C-terminal domain-like [159072] (1)
    C-terminal part of PfamB 004822
SspB-like [101737] (1)
core: barrel, open; n*=4, S*=8; meander; SH3-like topology; some similarity to the Sm-like fold
1. SspB-like [101738] (2)
  uperfamily
  1. Stringent starvation protein B, SspB [101739] (2)
  2. AGR_C_3712p-like [159075] (1)
    Pfam 07031; DUF1321
Rof/RNase P subunit-like [101743] (1)
core: barrel, open; n*=4, S*=8; meander; SH3-like topology; some similarity to the Sm-like fold
1. Rof/RNase P subunit-like [101744] (2)
  uperfamily
  1. RNase P subunit p29-like [101745] (3)
    two available NMR structures display similar topologies but different barrel shapes
    the barrel shape of the full-length X-ray structures of AF1917 differs from both earlier NMR structures
  2. Rof-like [141305] (1)
    Pfam 07073; ROF
Hydrophobin II, HfbII [101750] (1)
core: barrel, closed; n=4, S=8; complex topology; helix-containing crossover connection
1. Hydrophobin II, HfbII [101751] (1)
  uperfamily
  1. Hydrophobin II, HfbII [101752] (1)
    a self-assembling amphiphile
Ribosomal protein L14 [50192] (1)
barrel, closed; n=5, S=8, meander
1. Ribosomal protein L14 [50193] (1)
  uperfamily
  1. Ribosomal protein L14 [50194] (5)
OB-fold [50198] (16)
barrel, closed or partly opened n=5, S=10 or S=8; greek-key
1. Staphylococcal nuclease [50199] (1)
  uperfamily
  1. Staphylococcal nuclease [50200] (1)
    barrel, closed; n=5, S=10
2. Bacterial enterotoxins [50203] (2)
  uperfamily
  1. Bacterial AB5 toxins, B-subunits [50204] (9)
  2. Superantigen toxins, N-terminal domain [50219] (15)
3. TIMP-like [50242] (3)
  uperfamily
  1. Tissue inhibitor of metalloproteinases, TIMP [50243] (3)
    contains an irregular alpha+beta subdomain in the C-terminal extension
  2. Netrin-like domain (NTR/C345C module) [89320] (2)
    Pfam 01759
  3. The laminin-binding domain of agrin [63767] (1)
4. Heme chaperone CcmE [82093] (1)
  uperfamily
  1. Heme chaperone CcmE [82094] (2)
5. gp5 N-terminal domain-like [69255] (1)
  uperfamily
  1. gp4 N-terminal domain-like [69256] (2)
6. Hypothetical protein YgiW [101756] (1)
  uperfamily
  1. Hypothetical protein YgiW [101757] (1)
    Pfam 04076, Domain of unknown function DUF388
7. Nucleic acid-binding proteins [50249] (16)
  uperfamily
  1. Anticodon-binding domain [50250] (7)
    barrel, closed; n=5, S=10
  2. RecG "wedge" domain [69259] (1)
  3. DNA helicase RuvA subunit, N-terminal domain [50259] (3)
    barrel, closed; n=5, S=10
  4. Single strand DNA-binding domain, SSB [50263] (17)
    barrel, closed; n=5, S=10
  5. Myf domain [50277] (7)
  6. Cold shock DNA-binding domain-like [50282] (56)
    barrel, closed; n=5, S=8
  7. TRAM domain [101768] (3)
    Pfam 01938
  8. Hypothetical protein MTH1 (MT0001), insert domain [74955] (1)
  9. DNA ligase/mRNA capping enzyme postcatalytic domain [50307] (6)
  10. Phage ssDNA-binding proteins [50315] (5)
    barrel, open; n*=5, S*=8; the members' structures vary greater that those from cellular organisms
  11. DNA replication initiator (cdc21/cdc54) N-terminal domain [89332] (1)
  12. RNA polymerase subunit RBP8 [50321] (1)
    duplication; contains tandem repeat of two incomplete OB-folds; forms a single barrel; n=8, S=10
  13. RecO N-terminal domain-like [117204] (1)
    N-terminal part of Pfam 02565
  14. TIP49 domain [141315] (1)
    N-terminal part of Pfam 06068; the RuvA-like OB-fold domain in RuvB-like eukaryotic proteins
  15. SSO2064-like [159109] (1)
    Pfam 01796; DUF35; contains extra N-terminal zinc finger subdomain of the rubredoxin-like fold
  16. RNB domain-like [159112] (3)
    Pfam 00773; RNase II catalytic domain; decorated OB-fold domain with extra C-terminal structures forming the active site
8. Inorganic pyrophosphatase [50324] (1)
  uperfamily
  1. Inorganic pyrophosphatase [50325] (6)
    barrel, closed; n=5, S=8
9. MOP-like [50331] (3)
  uperfamily
  1. Molybdate/tungstate binding protein MOP [50332] (2)
  2. BiMOP, duplicated molybdate-binding domain [50335] (2)
    duplication: tandem repeat of two OB-fold domains with swapped C-terminal strands
  3. ABC-transporter additional domain [50338] (5)
    probably stems out from the biMOP domain
10. CheW-like [50341] (1)
  uperfamily
  1. CheW-like [50342] (2)
    duplication: tandem repeat of two swapped domains, one with a canonical OB-fold topology and one with a circular permutation
11. TM0957-like [141318] (1)
  extra N-terminal region and large insertion after strand 3 together form an alpha-helical subdomain
  uperfamily
  1. TM0957-like [141319] (1)
12. NfeD domain-like [141322] (1)
  close structural similarity to some members of the Nucleic acid-binding OB-fold proteins, possibly related to this superfamily
  uperfamily
  1. NfeD domain-like [141323] (1)
    C-terminal part of Pfam 01957
13. BC4932-like [159121] (1)
  1. BC4932-like [159122] (2)
    Pfam 06486; DUF1093
14. HupF/HypC-like [159127] (1)
  contains extra C-terminal helix packed against the beta-barrel side
  1. HupF/HypC-like [159128] (3)
    Pfam 01455
15. EutN/CcmL-like [159133] (1)
  homohexameric unit
  1. EutN/CcmL-like [159134] (3)
    Pfam 03319
16. HIN-2000 domain-like [159141] (1)
  duplication: tandem repeat of two OB-fold domains
  1. HIN-200/IF120x domain [159142] (1)
    Pfam 02760
PRC-barrel domain [50345] (1)
core: barrel, partly opened; n*=5, S*=8; meander
1. PRC-barrel domain [50346] (4)
  uperfamily
  1. MTH1895 [101773] (1)
    homodimeric protein; subunits are composed of a stand-alone copy of this domain
  2. Photosynthetic reaction centre, H-chain, cytoplasmic domain [50347] (3)
  3. RIKEN cDNA 2310057j16 protein (KIAA1543) [110202] (1)
    contains an N-terminal alpha-haipin and other fold decorations
  4. RimM C-terminal domain-like [141326] (1)
beta-Trefoil [50352] (8)
barrel, closed; n=6, S=12; and a hairpin triplet; meander
duplication: has internal pseudo threefold symmetry
1. Cytokine [50353] (2)
  uperfamily
  1. Fibroblast growth factors (FGF) [50354] (11)
  2. Interleukin-1 (IL-1) [50362] (6)
2. MIR domain [82109] (1)
  uperfamily
  1. MIR domain [82110] (2)
    Pfam 02815
3. Ricin B-like lectins [50370] (3)
  uperfamily
  1. Ricin B-like [50371] (18)
  2. Cysteine rich domain [50379] (1)
  3. GlcNAc-alpha-1,4-Gal-releasing endo-beta-galactosidase, GngC, C-terminal domain [117212] (1)
4. Agglutinin [50382] (1)
  this superfamily is distinct from the ricin B-like lectin superfamily
  uperfamily
  1. Agglutinin [50383] (1)
5. STI-like [50386] (2)
  uperfamily
  1. Kunitz (STI) inhibitors [50387] (7)
  2. Clostridium neurotoxins, C-terminal domain [50399] (3)
    overall fold is very similar to that of the STI family
6. Actin-crosslinking proteins [50405] (2)
  uperfamily
  1. Fascin [50406] (1)
  2. Histidine-rich actin-binding protein (hisactophilin) [50409] (1)
7. DNA-binding protein LAG-1 (CSL) [110217] (1)
  contains rudiment hairpin triplet lacking one hairpin
  uperfamily
  1. DNA-binding protein LAG-1 (CSL) [110218] (1)
8. AbfB domain [110221] (1)
  uperfamily
  1. AbfB domain [110222] (1)
    Pfam 05270
Reductase/isomerase/elongation factor common domain [50412] (4)
barrel, closed; n=6, S=10; greek-key
1. Riboflavin synthase domain-like [63380] (3)
  uperfamily
  1. Riboflavin synthase [63783] (2)
    duplication: consists of two homologous domains
  2. Ferredoxin reductase FAD-binding domain-like [63381] (19)
    coupled with a NADP-binding domain of alpha/beta class
  3. NADPH-cytochrome p450 reductase FAD-binding domain-like [50438] (3)
    there is an alpha-helical subdomain inserted in this domain
2. Riboflavin kinase-like [82114] (2)
  uperfamily
  1. ATP-dependent riboflavin kinase-like [82115] (3)
  2. CTP-dependent riboflavin kinase-like [159154] (2)
    Pfam 01982; newly characterized archaeal family (formerly DUF120)
3. FucI/AraA C-terminal domain-like [50443] (2)
  uperfamily
  1. L-fucose isomerase, C-terminal domain [50444] (1)
  2. AraA C-terminal domain-like [141331] (1)
    C-terminal part of Pfam 02610
4. Translation proteins [50447] (6)
  uperfamily
  1. Elongation factors [50448] (18)
  2. Ribosomal protein L3 [50461] (4)
  3. Ribosomal protein L35ae [117220] (1)
    Pfam 01247
  4. RimM N-terminal domain-like [141338] (1)
    Pfam 01782
  5. Gar1-like SnoRNP [141341] (1)
    stand alone proteins, which are similar structurally but not sequentially to the elongation factor domains, unlike PF0907
  6. AlaX-M N-terminal domain-like [159161] (1)
    Does NOT belong to Pfam 01411
Elongation factor/aminomethyltransferase common domain [50464] (2)
barrel, closed; n=6, S=10; greek-key
1. EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain [50465] (1)
  probably related to the second domain and its superfamiy by a circular permutation
  uperfamily
  1. EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain [50466] (12)
2. Aminomethyltransferase beta-barrel domain [101790] (1)
  uperfamily
  1. Aminomethyltransferase beta-barrel domain [101791] (5)
Split barrel-like [50474] (3)
barrel; n=6, S=10; greek-key
1. FMN-binding split barrel [50475] (4)
  related to the ferredoxin reductase-like FAD-binding domain
  uperfamily
  1. PNP-oxidase like [50476] (21)
  2. NADH:FMN oxidoreductase-like [50482] (5)
    different dimerization mode than in the PNP-oxidase like family
  3. UbiD middle domain-like [141368] (1)
    N terminal part of Pfam 01977; overall structural similarity to one subunit of the NADH:FMN oxidoreductase-like family (scop_fa 50482); not known to bind a flavin cofactor; also includes the N-terminal alpha+beta subdomain (~110 residues)
  4. MTH863-like [159164] (3)
    Pfam 04289; DUF447; a new dimerisation mode involving (included) all-alpha subdomain of the spectrin-like fold (scop_cf 46965)
2. PilZ domain-like [141371] (2)
  uperfamily
  1. PilZ domain [141372] (3)
    Pfam 07238
  2. PilZ domain-associated domain [141377] (2)
    this domain preceeds PilZ domain in some proteins
3. YkvR-like [159173] (1)
  provisional classification, pending better resolution structures
  1. YkvR-like [159174] (1)
    PfamB 102647
Phage tail proteins [69278] (1)
core: barrel; n=6, S=10; greek-key; topologically similar to the FMN-binding split barrel
1. Phage tail proteins [69279] (3)
  uperfamily
  1. Baseplate protein-like [69280] (5)
    duplication: consists of two similar barrel domains that differ by the first strand directions; the barrels are differently decorated by alpha+beta insertions
  2. gpFII-like [74966] (2)
    similar to the N-terminal barrel of T4 gp27
  3. XkdM-like [159185] (1)
    Pfam 09393; DUF2001
Surface presentation of antigens (SPOA) [101800] (1)
segment-swapped dimer forming two identical conjoint barrels (n=6, S=10) topologically similar to the FMN-binding split barrel
1. Surface presentation of antigens (SPOA) [101801] (1)
  uperfamily
  1. Surface presentation of antigens (SPOA) [101802] (2)
FMT C-terminal domain-like [50485] (1)
barrel, open; n*=6, S*=10; greek-key
1. FMT C-terminal domain-like [50486] (2)
  uperfamily
  1. Post formyltransferase domain [50487] (5)
  2. 3-methyladenine DNA glycosylase (AAG, ANPG, MPG) [50490] (1)
Trypsin-like serine proteases [50493] (1)
barrel, closed; n=6, S=8; greek-key
duplication: consists of two domains of the same fold
1. Trypsin-like serine proteases [50494] (4)
  uperfamily
  1. Prokaryotic proteases [50495] (16)
  2. Eukaryotic proteases [50514] (68)
  3. Viral proteases [50596] (9)
    beta sheet in the first domain is opened rather than forms a barrel
  4. Viral cysteine protease of trypsin fold [50603] (8)
Replicase NSP9 [101815] (1)
barrel; n=6, S=8, greek-key; similar to one trypsin-like protease barrel
1. Replicase NSP9 [101816] (1)
  uperfamily
  1. Replicase NSP9 [101817] (1)
mu transposase, C-terminal domain [50609] (1)
barrel; n=6, S=8, greek-key
1. mu transposase, C-terminal domain [50610] (1)
  uperfamily
  1. mu transposase, C-terminal domain [50611] (1)
Domain of alpha and beta subunits of F1 ATP synthase-like [50614] (3)
barrel, closed; n=6, S=8; greek-key
1. N-terminal domain of alpha and beta subunits of F1 ATP synthase [50615] (1)
  uperfamily
  1. N-terminal domain of alpha and beta subunits of F1 ATP synthase [50616] (8)
    6 domains form a ring structure which contains a barrel, closed; n=24, S=24(?)
2. Alanine racemase C-terminal domain-like [50621] (2)
  the barrel is decorated with additional structures
  uperfamily
  1. Alanine racemase [88682] (3)
  2. Eukaryotic ODC-like [88683] (6)
    barrel is open with strands 4 and 5 having swapped their positions, compared to the alanine racemase barrel
3. Aminopeptidase/glucanase lid domain [101821] (1)
  uperfamily
  1. Aminopeptidase/glucanase lid domain [101822] (7)
Small protein B (SmpB) [74981] (1)
barrel, closed; n=6, S=8, greek-key, partial similarity to the OB-fold
1. Small protein B (SmpB) [74982] (1)
  uperfamily
  1. Small protein B (SmpB) [74983] (2)
Acid proteases [50629] (1)
barrel, closed; n=6, S=10, complex topology
1. Acid proteases [50630] (3)
  uperfamily
  1. Retroviral protease (retropepsin) [50631] (8)
    dimer of identical mono-domain chains, each containing (6,10) barrel
  2. Pepsin-like [50646] (26)
    duplication: consists of two similar barrel domains
    N-terminal: barrel, partly opened; n*=6, S*=10
  3. LPG0085-like [159190] (1)
    Pfam 05618; DUF785; single-domain protein similar to one pepsin domain with the conserved catalytic Asp motif (not in a few archaeal members of this Pfam family)
ValRS/IleRS/LeuRS editing domain [50676] (1)
core: barrel, closed; n=6, S=8; topology is similar to that of the acid proteases barrel
1. ValRS/IleRS/LeuRS editing domain [50677] (1)
  uperfamily
  1. ValRS/IleRS/LeuRS editing domain [50678] (4)
    inserted into the catalytic domain
Urease metallochaperone UreE, N-terminal domain [69286] (1)
barrel, closed; n=6, S=8; a crossover loop topology
1. Urease metallochaperone UreE, N-terminal domain [69287] (1)
  uperfamily
  1. Urease metallochaperone UreE, N-terminal domain [69288] (2)
Double psi beta-barrel [50684] (2)
barrel, closed; n=6, S=10; complex topology with crossover (psi) loops
1. Barwin-like endoglucanases [50685] (4)
  uperfamily
  1. Eng V-like [50686] (3)
  2. Pollen allergen PHL P 1 N-terminal domain [82135] (1)
    conserved Eng V active site residues and disulfides; better structural similarity to the ADC-like superfamily
  3. Barwin [50689] (1)
  4. MLTA-like [159195] (3)
    Pfam 03562 and Pfam 06725 cover the middle and C-terminal parts, respectively; contains large insert domain of the L25-like fold (scop_cf 50714)
2. ADC-like [50692] (3)
  uperfamily
  1. Pyruvoyl dependent aspartate decarboxylase, ADC [50693] (2)
  2. Formate dehydrogenase/DMSO reductase, C-terminal domain [50696] (12)
    molybdopterine enzyme
  3. Cdc48 N-terminal domain-like [50708] (5)
Ribosomal protein L25-like [50714] (1)
barrel, closed; n=6, S=10; complex topology
1. Ribosomal protein L25-like [50715] (2)
  uperfamily
  1. Ribosomal protein L25-like [50716] (3)
  2. Gln-tRNA synthetase (GlnRS), C-terminal (anticodon-binding) domain [50719] (2)
Core binding factor beta, CBF [50722] (1)
barrel, closed; n=6, S=10; meander; capped at both ends by alpha-helices
1. Core binding factor beta, CBF [50723] (1)
  uperfamily
  1. Core binding factor beta, CBF [50724] (2)
NifT/FixU barrel-like [159202] (1)
barrel, closed, n=6, S=10; meander
1. NifT/FixU-like [159203] (1)
  1. NifT/FixU [159204] (1)
    Pfam 06988
PH domain-like barrel [50728] (2)
barrel, partly opened; n*=6, S*=12; meander; capped by an alpha-helix
1. PH domain-like [50729] (13)
  uperfamily
  1. Pleckstrin-homology domain (PH domain) [50730] (51)
    Pfam 00169
  2. Phosphotyrosine-binding domain (PTB) [50755] (14)
    Pfam 00640
  3. Ran-binding domain [50764] (4)
  4. Enabled/VASP homology 1 domain (EVH1 domain) [50767] (8)
  5. Dcp1 [101836] (1)
    close structural similarity to EVH1 domain
  6. Third domain of FERM [50776] (9)
  7. PreBEACH PH-like domain [82146] (2)
  8. GRAM domain [101839] (1)
  9. TFIIH domain [110272] (2)
  10. SSRP1-like [141436] (1)
    Pfam 03531; Structure-specific recognition protein family; duplication: comprises tandem repeat of two domains of this fold
  11. Necap1 N-terminal domain-like [141439] (1)
    Pfam 07933; DUF1681
  12. VPS36 N-terminal domain-like [141442] (3)
    PfamB 030385
  13. BPHL domain [159216] (2)
    Pfam 08000; DUF1696, bacterial proteins with PH-like domain
2. PA2021-like [141447] (1)
  prokaryotiic proteins of PH domain-like fold lacking the N-terminal strand
  uperfamily
  1. PA2021-like [141448] (1)
    small family specific to Pseudomonas
Transcription factor IIA (TFIIA), beta-barrel domain [50783] (1)
barrel, closed; n=6, S=12; mixed beta-sheet
1. Transcription factor IIA (TFIIA), beta-barrel domain [50784] (1)
  dimer of non-identical beta-sheet domains
  uperfamily
  1. Transcription factor IIA (TFIIA), beta-barrel domain [50785] (4)
    heterodimer of two homologous chains
Hcp1-like [141451] (1)
barrel, closed; n=6, S=12; contains extra, non-barrel strand 7 at the C-terminus
1. Hcp1-like [141452] (1)
  probable biological unit is a ring-like hexamer containing a 24-stranded beta-barrel made of the subunit beta-sheets
  uperfamily
  1. Hcp1-like [141453] (1)
    Pfam 05638; DUF796
YopT-like [159221] (1)
beta-sheet barrel, closed, n=6, S=12, capped at both ends by helices; intertwined dimer of beta-alpha-beta(2) subinits;
1. YopT-like [159222] (1)
  1. YopT-like [159223] (1)
    Pfam 09467
Herpes virus serine proteinase, assemblin [50788] (1)
core: barrel, closed; n=7, S=8; complex topology
1. Herpes virus serine proteinase, assemblin [50789] (1)
  uperfamily
  1. Herpes virus serine proteinase, assemblin [50790] (5)
PK beta-barrel domain-like [50799] (1)
barrel, closed; n=7, S=10; complex topology
1. PK beta-barrel domain-like [50800] (2)
  uperfamily
  1. Pyruvate kinase beta-barrel domain [50801] (6)
    this domain interrupts beta/alpha-barrel domain
    C-terminal domain is alpha/beta
  2. MOSC (MOCO sulphurase C-terminal) domain [101844] (2)
    Pfam 03473
XRCC4, N-terminal domain [50808] (1)
barrel, closed; n=7, S=10; order: 1234765; strands 1 and 5 are parallel to each other
1. XRCC4, N-terminal domain [50809] (1)
  an HTH motif connects strands 4 and 5
  uperfamily
  1. XRCC4, N-terminal domain [50810] (1)
HesB-like domain [89359] (1)
barrel, closed; n=7, S=10; complex topology
1. HesB-like domain [89360] (1)
  uperfamily
  1. HesB-like domain [89361] (3)
    Pfam 01521; Iron-sulfur cluster scaffold domain
Bacterial fluorinating enzyme, C-terminal domain [101851] (1)
barrel, closed; n=7, S=10; greek-key topology; one overside connection
1. Bacterial fluorinating enzyme, C-terminal domain [101852] (1)
  uperfamily
  1. Bacterial fluorinating enzyme, C-terminal domain [101853] (1)
SPOC domain-like [100938] (1)
barrel, closed; n=7, S=10; complex topology
1. SPOC domain-like [100939] (3)
  uperfamily
  1. SPOC domain [101856] (1)
  2. Ku70 subunit middle domain [100940] (1)
    includes C-terminal alpha-helical arm and DNA encircling insertion
  3. Ku80 subunit middle domain [100943] (1)
    includes C-terminal alpha-helical arm and DNA encircling insertion
BH3618-like [141456] (1)
barrel, closed; n=7, S=10; meander
1. BH3618-like [141457] (1)
  uperfamily
  1. BH3618-like [141458] (1)
    Pfam 02623; DUF180
FAS1 domain [82152] (1)
core: barrel, closed; n=7, S=12; meander
1. FAS1 domain [82153] (1)
  uperfamily
  1. FAS1 domain [82154] (2)
Lipocalins [50813] (1)
barrel, closed or opened; n=8, S=12; meander
1. Lipocalins [50814] (9)
  bind hydrophobic ligands in their interior
  uperfamily
  1. Retinol binding protein-like [50815] (30)
    barrel, closed; n=8, S=12, meander
  2. Fatty acid binding protein-like [50847] (28)
    ten-stranded meander beta-sheet folded upon itself
    relates to the common fold by opening the barrel and insertion of beta-hairpin
  3. Thrombin inhibitor [50872] (1)
    topology permutation: strands 2 and 3 swapped their positions in the barrel
  4. Hypothetical protein YodA [101863] (1)
    bacterial metal-binding, lipocalin-like protein
  5. Hypothetical protein YwiB [101866] (1)
    bacterial proteins with a fatty acid binding protein-like fold
  6. Phenolic acid decarboxylase (PAD) [141469] (1)
    Pfam 05870; dimeric enzyme made of lipocalin-like subunits
  7. Dinoflagellate luciferase repeat [141472] (1)
    PfamB 017809; comprises a fatty acid binding protein-like fold, wrapped into the extra N- and C-terminal 'tails'
  8. Rv2717c-like [141475] (2)
    bacterial and plant proteins with a fatty acid binding protein-like fold
  9. All1756-like [159230] (1)
    cyanobacterial proteins with duplicated fatty acid binding protein-like domains; N-terminal and C-terminal domains correspond to PfamB 40396 and PfamB 60468, respectively
Streptavidin-like [50875] (8)
barrel, closed; n=8, S=10; meander
1. Avidin/streptavidin [50876] (1)
  uperfamily
  1. Avidin/streptavidin [50877] (2)
2. beta-Barrel protease inhibitors [50882] (2)
  uperfamily
  1. Metalloprotease inhibitor [50883] (2)
  2. Staphostatin [101869] (2)
    cysteine protease inhibitor; topology permutation: strand 3 is replaced with the N-terminal extra strand
3. D-aminopeptidase, middle and C-terminal domains [50886] (1)
  uperfamily
  1. D-aminopeptidase, middle and C-terminal domains [50887] (1)
4. Quinohemoprotein amine dehydrogenase A chain, domain 3 [69298] (1)
  uperfamily
  1. Quinohemoprotein amine dehydrogenase A chain, domain 3 [69299] (2)
5. Dipeptidyl peptidase I (cathepsin C), exclusion domain [75001] (1)
  uperfamily
  1. Dipeptidyl peptidase I (cathepsin C), exclusion domain [75002] (2)
6. YceI-like [101874] (1)
  uperfamily
  1. YceI-like [101875] (2)
    Pfam 04264
7. Extracellular hemoglobin linker subunit, receptor domain [141480] (1)
  uperfamily
  1. Extracellular hemoglobin linker subunit, receptor domain [141481] (3)
8. YdhA-like [141488] (1)
  uperfamily
  1. YdhA-like [141489] (1)
FomD barrel-like [159233] (1)
barrel, closed; n=8, S=12; meander; similar topology to the AOC barrel-like fold (reversed to the lipocalin barrel topology)
1. FomD-like [159234] (1)
  1. FomD-like [159235] (1)
    Pfam 04167; DUF402
AOC barrel-like [141492] (2)
barrel, closed; n=8, S=10; meander; mirrored (reversed) topology to the Spreptavidin-like and Lipocalin-like folds
1. Allene oxide cyclase-like [141493] (1)
  uperfamily
  1. Allene oxide cyclase-like [141494] (2)
    Pfam 06351
2. SO1590-like [159238] (1)
  1. SO1590-like [159239] (2)
AttH-like [159244] (1)
duplication: two flattened beta-barrels of lipocalin-like topology are orthogonally packed with a pseudo twofold symmetry
1. AttH-like [159245] (1)
  1. AttH-like [159246] (1)
    Pfam 09410; DUF2006
Cyclophilin-like [50890] (1)
barrel, closed; n=8, S=10; complex topology
1. Cyclophilin-like [50891] (4)
  uperfamily
  1. Cyclophilin (peptidylprolyl isomerase) [50892] (25)
  2. Outer surface protein, C-terminal domain [110278] (1)
    lacks the N-terminal strand of cyclophilin but the beta-barrel (7,10) remains closed; corresponds to the C-terminal part of Pfam 05913
  3. TM1367-like [141519] (1)
    Pfam 04126; DUF369
  4. PH0987 C-terminal domain-like [159249] (1)
    lacks the N-terminal strand of cyclophilin but the beta-barrel (7,10) remains closed; corresponds to the C-terminal part of Pfam 02682; Allophanate hydrolase subunit 1 (AHS1)
Oncogene products [50903] (1)
barrel, closed; n=8, S=10; one overside connection
1. Oncogene products [50904] (1)
  duplication: N- and C-terminal halves are related by pseudo dyad
  uperfamily
  1. Oncogene products [50905] (3)
L,D-transpeptidase catalytic domain-like [141522] (1)
barrel, closed; n=8, S=10; one overside connection
1. L,D-transpeptidase catalytic domain-like [141523] (1)
  uperfamily
  1. L,D-transpeptidase catalytic domain-like [141524] (2)
    Pfam 03734; ErfK/YbiS/YcfS/YnhG
Sortase [63816] (1)
barrel, closed; n=8, S=10; mixed sheet; two overside connections
1. Sortase [63817] (1)
  uperfamily
  1. Sortase [63818] (3)
PTSIIA/GutA-like [141529] (1)
barrel, closed; n=8, S=12; mixed sheet; two overside connections; duplication: consists of two intertwinned structural repeats
1. PTSIIA/GutA-like [141530] (1)
  uperfamily
  1. PTSIIA/GutA-like [141531] (1)
    Pfam 03829
Mannose 6-phosphate receptor domain [50910] (1)
barrel, partly open; n*=8, S*=10; one psi loop
1. Mannose 6-phosphate receptor domain [50911] (1)
  uperfamily
  1. Mannose 6-phosphate receptor domain [50912] (3)
triple barrel [50915] (1)
dimer of two non-identical subunits; forms two similar barrels, n=8, S=10 each, that are fused together with the formation of third barrel, n=6, S=8
1. Rap30/74 interaction domains [50916] (1)
  uperfamily
  1. Rap30/74 interaction domains [50917] (2)
4-bladed beta-propeller [50922] (1)
consists of four 4-stranded beta-sheet motifs; meander
1. Hemopexin-like domain [50923] (1)
  uperfamily
  1. Hemopexin-like domain [50924] (6)
5-bladed beta-propeller [50933] (3)
consists of five 4-stranded beta-sheet motifs; meander
1. Tachylectin-2 [50934] (1)
  uperfamily
  1. Tachylectin-2 [50935] (1)
2. Arabinanase/levansucrase/invertase [75005] (5)
  uperfamily
  1. alpha-L-arabinanase-like [75006] (7)
  2. Levansucrase [101881] (1)
  3. Glycosyl hydrolases family 32 N-terminal domain [101884] (2)
    Pfam 00251; Glycosyl hydrolase family 32
  4. TM1225-like predicted glycosylases [110284] (1)
    Pfam 04041 DUF377
  5. LmjF10.1260-like [141543] (1)
3. Apyrase [101887] (1)
  distorted propeller with an alpha helix inserted between the second and third blades
  uperfamily
  1. Apyrase [101888] (1)
    Pfam 06079
6-bladed beta-propeller [50938] (11)
consists of six 4-stranded beta-sheet motifs; meander
1. Sialidases [50939] (2)
  uperfamily
  1. Sialidases (neuraminidases) [50940] (11)
  2. Endo-alpha-sialidase [117276] (1)
    possibly related by the other family by circular permutation; includes extra N-terminal domain [dN: alpha/beta ] and insert domain [dI: beta-barrel, similar to the Reductase/isomerase/elongation factor common domain (scop_cf 50412)]
2. Soluble quinoprotein glucose dehydrogenase [50952] (1)
  uperfamily
  1. Soluble quinoprotein glucose dehydrogenase [50953] (1)
3. Thermostable phytase (3-phytase) [50956] (1)
  uperfamily
  1. Thermostable phytase (3-phytase) [50957] (1)
4. TolB, C-terminal domain [50960] (1)
  uperfamily
  1. TolB, C-terminal domain [50961] (1)
5. YWTD domain [63825] (1)
  uperfamily
  1. YWTD domain [63826] (2)
6. Calcium-dependent phosphotriesterase [63829] (3)
  uperfamily
  1. SGL-like [63830] (3)
  2. Serum paraoxonase/arylesterase 1, PON1 [101895] (1)
  3. All0351-like [159252] (1)
    N-terminal half is PfamB 89298 and C-terminal half is PfamB 80276; includes recent entry 2qe8 (Ava4197)
7. Tricorn protease N-terminal domain [69304] (1)
  possibly related to the second domain of tricorn protease (a distorted 7-bladed beta-propeller)
  uperfamily
  1. Tricorn protease N-terminal domain [69305] (1)
8. Fucose-specific lectin [89372] (1)
  uperfamily
  1. Fucose-specific lectin [89373] (1)
9. NHL repeat [101898] (1)
  uperfamily
  1. NHL repeat [101899] (2)
    Pfam 01436
10. GyrA/ParC C-terminal domain-like [101904] (1)
  beta-pinwheel, a variant of beta-propeller fold; unlike an canonical beta-propeller, strands 1 and 4 of each four-strand repeat unit are in one blade whereas strands 2 and 3 are in the next blade
  uperfamily
  1. GyrA/ParC C-terminal domain-like [101905] (2)
    Pfam 03989; functional conformational changes result in breaking the interface between the N- and C-terminal blades
11. Kelch motif [117281] (1)
  uperfamily
  1. Kelch motif [117282] (2)
    Pfam 01344; sequence motif corresponding to one beta-sheet blade; similar sequences are found in the Galactose oxidase 7-bladed beta-propeller domain (scop_pr 50967)
7-bladed beta-propeller [50964] (14)
consists of seven 4-stranded beta-sheet motifs; meander
1. Galactose oxidase, central domain [50965] (1)
  uperfamily
  1. Galactose oxidase, central domain [50966] (3)
2. YVTN repeat-like/Quinoprotein amine dehydrogenase [50969] (3)
  uperfamily
  1. YVTN repeat [82166] (1)
    more regular propeller with clear sequence repeats
  2. Quinohemoprotein amine dehydrogenase B chain [69309] (2)
    less regular propeller with imperfect sequence repeats; quinone cofactor is a tryptophan derivative in another subunit
  3. Methylamine dehydrogenase, H-chain [50970] (2)
    less regular propeller without notable sequence repeats; quinone cofactor is a tryptophan derivative in another subunit
3. Nitrous oxide reductase, N-terminal domain [50974] (1)
  uperfamily
  1. Nitrous oxide reductase, N-terminal domain [50975] (2)
4. WD40 repeat-like [50978] (2)
  also contains 8-bladed propellers
  uperfamily
  1. WD40-repeat [50979] (12)
  2. Cell cycle arrest protein BUB3 [110289] (1)
    possibly related to the WD-repeat family; both sequence similarity between the blades and the WD40 repeat signature are very weak
5. RCC1/BLIP-II [50985] (2)
  two families are clearly related but differ by the number of strands per blade
  uperfamily
  1. Regulator of chromosome condensation RCC1 [50986] (1)
  2. beta-lactamase inhibitor protein-II, BLIP-II [69315] (1)
    lacks the outer strands
6. Clathrin heavy-chain terminal domain [50989] (1)
  uperfamily
  1. Clathrin heavy-chain terminal domain [50990] (1)
7. Integrin alpha N-terminal domain [69318] (1)
  uperfamily
  1. Integrin alpha N-terminal domain [69319] (2)
8. Peptidase/esterase 'gauge' domain [50993] (2)
  uperfamily
  1. Prolyl oligopeptidase, N-terminal domain [50994] (1)
  2. Acylamino-acid-releasing enzyme, N-terminal donain [117286] (1)
9. Tricorn protease domain 2 [69322] (1)
  distorted 7-bladed beta-propeller fold; possibly related to the N-terminal domain of tricorn protease (a 6-bladed beta-propeller)
  uperfamily
  1. Tricorn protease domain 2 [69323] (1)
10. 3-carboxy-cis,cis-mucoante lactonizing enzyme [75011] (1)
  uperfamily
  1. 3-carboxy-cis,cis-mucoante lactonizing enzyme [75012] (1)
11. Putative isomerase YbhE [101908] (1)
  uperfamily
  1. Putative isomerase YbhE [101909] (1)
12. Sema domain [101912] (1)
  irregular 7-bladed beta-propeller with a large insertion in the fifth blade
  uperfamily
  1. Sema domain [101913] (3)
    Pfam 01403
13. Oligoxyloglucan reducing end-specific cellobiohydrolase [110296] (1)
  duplication: # two beta-propeller domains are swapped with the N-terminal strands; similar domain arrangment to the Actin interacting protein 1 (scop_pr 89378)
  uperfamily
  1. Oligoxyloglucan reducing end-specific cellobiohydrolase [110297] (1)
    contains at least 9 BNR/Asp-box repeats (Pfam 02012) usually associated with the 6-bladed propeller Neuraminidases (scop_sf 50939)
14. Nucleoporin domain [117289] (1)
  uperfamily
  1. Nucleoporin domain [117290] (2)
8-bladed beta-propeller [50997] (3)
consists of eight 4-stranded beta-sheet motifs; meander
also found in some members of the WD40-repeat superfamily
1. Quinoprotein alcohol dehydrogenase-like [50998] (1)
  uperfamily
  1. Quinoprotein alcohol dehydrogenase-like [50999] (6)
2. C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase [51004] (1)
  uperfamily
  1. C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase [51005] (3)
3. DPP6 N-terminal domain-like [82171] (1)
  uperfamily
  1. DPP6 N-terminal domain-like [82172] (3)
    Pfam 00930
Glycosyl hydrolase domain [51010] (1)
folded sheet; greek-key
1. Glycosyl hydrolase domain [51011] (5)
  this domain is C-terminal to the catalytic beta/alpha barrel domain
  uperfamily
  1. alpha-Amylases, C-terminal beta-sheet domain [51012] (46)
    this domain follows the catalytic beta/alpha barrel domain
  2. Composite domain of glycosyl hydrolase families 5, 30, 39 and 51 [89388] (6)
    interrupted by the catalytic domain; the C-terminal core is similar to the alpha-amylase domain
  3. Putative alpha-L-fucosidase C-terminal domain [101928] (1)
    glycosyl hydrolase family 29; beta-sheet forms a closed beta-barrel (n=8, S=10)
  4. Putative glucosidase YicI, domain 3 [117298] (1)
  5. Beta-galactosidase LacA, domain 2 [117301] (1)
    contains extra C-terminal beta-sandwich subdomain [greek-key; partial topological similarity to the immunoglobulin-like fold]
WW domain-like [51044] (3)
core: 3-stranded meander beta-sheet
1. WW domain [51045] (1)
  uperfamily
  1. WW domain [51046] (13)
2. Carbohydrate binding domain [51055] (1)
  uperfamily
  1. Carbohydrate binding domain [51056] (3)
3. Pym (Within the bgcn gene intron protein, WIBG), N-terminal domain [101931] (1)
  uperfamily
  1. Pym (Within the bgcn gene intron protein, WIBG), N-terminal domain [101932] (1)
Head domain of nucleotide exchange factor GrpE [51063] (1)
small mixed beta-sheet, 4 "generalized" strands
1. Head domain of nucleotide exchange factor GrpE [51064] (1)
  uperfamily
  1. Head domain of nucleotide exchange factor GrpE [51065] (1)
Coronavirus RNA-binding domain [110303] (1)
coiled antiparallel beta-sheet of 5 strands, order 51324; complex topology, crossing loops
1. Coronavirus RNA-binding domain [110304] (1)
  uperfamily
  1. Coronavirus RNA-binding domain [110305] (2)
    N-terminal part of Pfam 00937
Ribonuclease domain of colicin E3 [63839] (1)
twisted meander beta-sheet of 6 strands
1. Ribonuclease domain of colicin E3 [63840] (1)
  uperfamily
  1. Ribonuclease domain of colicin E3 [63841] (1)
NAC domain [101940] (1)
core: twisted 7-stranded beta-sheet (half-barrel)
1. NAC domain [101941] (1)
  uperfamily
  1. NAC domain [101942] (1)
    Pfam 02365, NAM; transcription factor domain
At5g01610-like [141561] (1)
contains large meander beta-sheet bent into a scoop-like shape
1. At5g01610-like [141562] (1)
  uperfamily
  1. At5g01610-like [141563] (1)
    Pfam 04398; DUF538
Carbonic anhydrase [51068] (1)
single sheet; 10 strands
1. Carbonic anhydrase [51069] (1)
  uperfamily
  1. Carbonic anhydrase [51070] (10)
LolA-like prokaryotic lipoproteins and lipoprotein localization factors [89391] (1)
11 stranded sheet partly folded in a corner-like structure filled with a few short helices
1. Prokaryotic lipoproteins and lipoprotein localization factors [89392] (3)
  uperfamily
  1. Outer-membrane lipoproteins carrier protein LolA [89393] (1)
  2. Outer membrane lipoprotein receptor LolB [89396] (1)
  3. LppX-like [141566] (1)
    Pfam 07161; DUF1396; contains a large cavity between the 'flattened' beta-sheet and helix-containing loops
YmcC-like [159269] (1)
12-stranded meander beta-sheet, folded into a deformed beta-barrel; topological similarity to the LolA-like fold (scop_cf 89391)
1. YmcC-like [159270] (1)
  1. YmcC-like [159271] (1)
    PfamB 007600
Spiral beta-roll [159274] (1)
a large 15-stranded beta-sheet rolled about a single helix core; overlapping edges form a sandwich-like structure; topological similarity to the LolA-like fold (scop_cf 89391)
1. PA1994-like [159275] (1)
  1. PA1994-like [159276] (1)
    Pfam 06475; DUF1089
Bacteriochlorophyll A protein [51080] (1)
single sheet; 16 strands; meander
1. Bacteriochlorophyll A protein [51081] (1)
  uperfamily
  1. Bacteriochlorophyll A protein [51082] (2)
open-sided beta-meander [51086] (2)
single sheet formed by beta-hairpin repeats; exposed on both sides in the middle
1. Outer surface protein [51087] (1)
  21 stranded sheet partly folded upon itself at the ends
  uperfamily
  1. Outer surface protein [51088] (2)
2. Histone H3 K4-specific methyltransferase SET7/9 N-terminal domain [82185] (1)
  11+ stranded sheet partly folded upon itself at the C-end
  uperfamily
  1. Histone H3 K4-specific methyltransferase SET7/9 N-terminal domain [82186] (1)
beta-Prism I [51091] (3)
consists of 3 4-stranded sheets; strands are parallel to the 3-fold axis
duplication: has internal pseudo threefold symmetry
1. Vitelline membrane outer protein-I (VMO-I) [51092] (1)
  uperfamily
  1. Vitelline membrane outer protein-I (VMO-I) [51093] (1)
2. delta-Endotoxin (insectocide), middle domain [51096] (1)
  uperfamily
  1. delta-Endotoxin (insectocide), middle domain [51097] (4)
3. Mannose-binding lectins [51101] (1)
  uperfamily
  1. Mannose-binding lectins [51102] (8)
beta-Prism II [51109] (1)
consists of 3 4-stranded sheets; strands are perpendicular to the 3-fold axis
duplication: consists of two domains of this fold
1. alpha-D-mannose-specific plant lectins [51110] (1)
  uperfamily
  1. alpha-D-mannose-specific plant lectins [51111] (6)
Single-stranded right-handed beta-helix [51125] (8)
superhelix turns are made of parallel beta-strands and (short) turns
1. beta-Roll [51120] (1)
  superhelix turns are made of two short strands each
  uperfamily
  1. Serralysin-like metalloprotease, C-terminal domain [51121] (4)
    duplication: halfturs of beta-helix are sequence and structural repeats; binds calcium ions between the turns
2. Pectin lyase-like [51126] (11)
  superhelix turns are made of 3 strands each
  uperfamily
  1. Pectate lyase-like [51127] (6)
  2. Pectin lyase [51133] (2)
  3. Galacturonase [51137] (7)
  4. Chondroitinase B [51144] (1)
  5. iota-carrageenase [69333] (1)
  6. Pectate transeliminase [101951] (1)
  7. Dextranase, catalytic domain [101954] (1)
  8. Pectin methylesterase [51147] (2)
  9. P22 tailspike protein [51150] (1)
  10. Virulence factor P.69 pertactin [51153] (1)
  11. Filamentous hemagglutinin FhaB, secretion domain [101957] (1)
3. Insect cysteine-rich antifreeze protein [51156] (1)
  superhelix turns are made of two short strands each
  uperfamily
  1. Insect cysteine-rich antifreeze protein [51157] (1)
4. Cell-division inhibitor MinC, C-terminal domain [63848] (1)
  superhelix turns are made of three short strands each
  uperfamily
  1. Cell-division inhibitor MinC, C-terminal domain [63849] (1)
5. Alpha subunit of glutamate synthase, C-terminal domain [69336] (1)
  uperfamily
  1. Alpha subunit of glutamate synthase, C-terminal domain [69337] (2)
6. C-terminal domain of adenylylcyclase associated protein [69340] (1)
  superhelix turns are made of two strands each
  uperfamily
  1. C-terminal domain of adenylylcyclase associated protein [69341] (2)
7. Stabilizer of iron transporter SufD [101960] (1)
  superhelix turns are made of two very long strands each
  uperfamily
  1. Stabilizer of iron transporter SufD [101961] (1)
8. Pentapeptide repeat-like [141571] (1)
  superhelix turns are made of four short strands each; duplication: the sequence pentapeptide repeats correspond to individual strands
  uperfamily
  1. Pentapeptide repeats [141572] (3)
    Pfam 00805 (covers eight repeats or two full superhelical turns)
Single-stranded left-handed beta-helix [51160] (4)
superhelix turns are made of parallel beta-strands and (short) turns
1. Trimeric LpxA-like enzymes [51161] (8)
  superhelical turns are made of three short strands; duplication: the sequence hexapeptide repeats correspond to individual strands
  uperfamily
  1. UDP N-acetylglucosamine acyltransferase [51162] (2)
  2. Tetrahydrodipicolinate-N-succinlytransferase, THDP-succinlytransferase, DapD [51165] (1)
    contains extra N-terminal 3-helical domain
  3. Galactoside acetyltransferase-like [51168] (4)
  4. GlmU C-terminal domain-like [51171] (4)
  5. gamma-carbonic anhydrase-like [51174] (3)
    archaeal hexapeptide repeat proteins
  6. Serine acetyltransferase [110309] (2)
  7. YdcK-like [141583] (1)
    part of Pfam 00132
  8. PglD-like [159280] (1)
    contains extra N-terminal alpha/beta subdomain
2. An insect antifreeze protein [51177] (1)
  superhelical turns are made of three short strands
  uperfamily
  1. An insect antifreeze protein [51178] (2)
3. Adhesin YadA, collagen-binding domain [101967] (1)
  superhelical turns are made of two short strands
  uperfamily
  1. Adhesin YadA, collagen-binding domain [101968] (1)
4. Guanosine diphospho-D-mannose pyrophosphorylase/mannose-6-phosphate isomerase linker domain [159283] (1)
  probable rudiment form of the LpxA-like hexapeptide domain
  1. Guanosine diphospho-D-mannose pyrophosphorylase/mannose-6-phosphate isomerase linker domain [159284] (1)
    corresponds to the N-terminal part of Pfam 01050, but does not extend to the conserved functional motif; the predicted cupin fold may reside in the rest of the Pfam domain
Double-stranded beta-helix [51181] (7)
one turn of helix is made by two pairs of antiparallel strands linked with short turns
has appearance of a sandwich of distinct architecture and jelly-roll topology
1. RmlC-like cupins [51182] (24)
  uperfamily
  1. dTDP-sugar isomerase [51183] (9)
  2. Glucose-6-phosphate isomerase, GPI [89403] (2)
  3. Hypothetical protein TM1112 [89406] (1)
  4. TM1287-like [89409] (4)
  5. TM1459-like [101976] (2)
  6. Germin/Seed storage 7S protein [51187] (9)
  7. YlbA-like [101979] (4)
    Pfam 05899; formerly pfam06038; duplication: consists of two germin-like domains
  8. Pirin-like [101984] (2)
    Share a common two-domain fold with the 7S protein; there is a metal-binding site in the N-terminal domain similar to the metal-binding site of germin
  9. Quercetin 2,3-dioxygenase-like [75035] (2)
    Share a common two-domain fold with the 7S protein; there is a metal-binding site in the N-terminal domain similar to the metal-binding site of germin
  10. Type I phosphomannose isomerase [51191] (3)
    Share a common two-domain fold with the 7S protein; there is a metal-binding site in the N-terminal domain similar to the metal-binding site of germin
  11. Homogentisate dioxygenase [51194] (1)
    Share a common two-domain fold with the 7S protein; there is a metal-binding site in the C-terminal domain similar to the metal-binding site of germin
  12. Acireductone dioxygenase [82191] (2)
  13. KduI-like [110318] (2)
    Pfam 04962: duplication: consists of two germin-like domains
  14. Ureidoglycolate hydrolase AllA [117312] (3)
    Pfam 04115; beta-hairpin-swapped dimeric protein of the germin-like fold
  15. Probable transcriptional regulator VC1968, C-terminal domain [117315] (1)
  16. YML079-like [117318] (3)
    Pfam 06172; DUF985
  17. PA5104-like [141609] (1)
    Pfam 05962; DUF886; duplication: consists of two germin-like domains; overall structural similarity to the YlbA-like family (scop_fa 101979) except a deletion in the interdomain linker region
  18. MJ0764-like [141612] (1)
  19. Cysteine dioxygenase type I [141615] (4)
    Pfam 05995, CDO_I
  20. 3-hydroxyanthranilic acid dioxygenase-like [141618] (2)
    Pfam 06052; 3-HAO
  21. Acetylacetone-cleaving enzyme-like [159293] (1)
    PfamB 026844
  22. VPA0057-like [159296] (1)
    Pfam 06865; DUF1255; non-canonical dimerisation mode
  23. Gentisate 1,2-dioxygenase-like [159299] (3)
    Share a common two-domain fold with the 7S protein; there is a metal-binding site in the N-terminal domain similar to the metal-binding site of germin; homotetramer
  24. EutQ-like [159304] (1)
    Pfam 06249
2. Clavaminate synthase-like [51197] (13)
  Iron and ketoglutarate-dependent enzymes; elaborated version of this common fold
  uperfamily
  1. Penicillin synthase-like [51198] (4)
    common fold is rather distorted
  2. Clavaminate synthase [51203] (1)
  3. Gab protein (hypothetical protein YgaT) [63855] (1)
  4. YhcH-like [89413] (1)
  5. Type II Proline 3-hydroxylase (proline oxidase) [63858] (1)
  6. TauD/TfdA-like [75038] (2)
  7. gamma-Butyrobetaine hydroxylase [89416] (2)
    Pfam 03322
  8. Hypoxia-inducible factor HIF ihhibitor (FIH1) [82194] (1)
  9. PhyH-like [141623] (2)
    Pfam 05721
  10. AlkB-like [141628] (2)
  11. Asparaginyl hydroxylase-like [141633] (1)
    Pfam 08007
  12. YbiU-like [141636] (1)
    Pfam 07350; DUF1479
  13. TehB-like [159307] (2)
    Pfam 09313; DUF1971
3. cAMP-binding domain-like [51206] (3)
  uperfamily
  1. CO-sensing protein CooA, N-terminal domain [51207] (1)
    heme-binding domain
  2. Listeriolysin regulatory protein PrfA, N-terminal domain [89419] (1)
  3. cAMP-binding domain [51210] (14)
    Pfam 00027
4. Regulatory protein AraC [51215] (1)
  uperfamily
  1. Regulatory protein AraC [51216] (1)
5. Thiamin pyrophosphokinase, substrate-binding domain [63862] (1)
  uperfamily
  1. Thiamin pyrophosphokinase, substrate-binding domain [63863] (2)
6. Calcium ATPase, transduction domain A [81653] (1)
  a distorted variant of double-helix
  uperfamily
  1. Calcium ATPase, transduction domain A [81652] (1)
7. TRAP-like [51219] (2)
  shorter variant of double-helix; assembles in large ring-like structures containing from 9 to 11 domains
  uperfamily
  1. Trp RNA-binding attenuation protein (TRAP) [51220] (2)
    oligomeric ring consists of 11 single-domain subunits
  2. PA3696/SPS0176-like [101995] (2)
    duplication: there are three structural repeats per subunit; nine domains per ring-like trimer
Triple-stranded beta-helix [69348] (1)
(homo)trimer; each chain donates 3 beta-strands per turn of the helix
1. Phage fibre proteins [69349] (5)
  uperfamily
  1. Middle part of short tail fibre protein gp12 [69350] (1)
  2. Tail-associated lysozyme gp5, C-terminal domain [69353] (1)
  3. Endo-alpha-sialidase [117325] (1)
  4. Lactophage receptor-binding protein domain [141647] (2)
  5. HylP-like [159317] (1)
    Pfam 07212
Triple beta-spiral [51224] (1)
trimer formed by the interlocking beta-hairpin repeat units
1. Fibre shaft of virus attachment proteins [51225] (2)
  uperfamily
  1. Adenovirus [51226] (1)
  2. Reovirus attachment protein sigma 1 [69356] (1)
Trimeric adhesin [101998] (1)
trimer; contains two different beta-prism-like domains connected by an linker subdomain of less regular structure
1. Trimeric adhesin [101999] (1)
  uperfamily
  1. Trimeric adhesin [102000] (1)
beta-hairpin stack [69359] (1)
Trp-rich beta-hairpin repeat units form helical structures of 3 units per turn
1. Cell wall binding repeat [69360] (1)
  uperfamily
  1. Cell wall binding repeat [69361] (3)
Barrel-sandwich hybrid [51229] (4)
sandwich of half-barrel shaped beta-sheets
1. Single hybrid motif [51230] (1)
  7 to 8 strands in 2 beta-sheets
  uperfamily
  1. Biotinyl/lipoyl-carrier proteins and domains [51231] (13)
2. Rudiment single hybrid motif [51246] (2)
  uperfamily
  1. BC C-terminal domain-like [51247] (7)
    probable rudiment form of the biotinyl-carrier domain
  2. Cytochrome f, small domain [51256] (5)
3. Duplicated hybrid motif [51261] (2)
  half-barrel sheet of 8 strands sandwiched with two 3-stranded sheets
  uperfamily
  1. Glucose permease-like [51262] (3)
  2. Peptidoglycan hydrolase LytM [102006] (1)
    Peptidase family M23; contains extra N-terminal, non-conserved beta-sheet subdomain
4. Ribosomal L27 protein-like [110324] (2)
  rudiment single hybrid fold with a permuted topology
  uperfamily
  1. Ribosomal L27 protein [110325] (3)
    Pfam 01016
  2. ECR1 N-terminal domain-like [159324] (5)
    ECR1 - Exosome complex RNA-binding protein 1
beta-clip [51268] (7)
double-stranded ribbon sharply bent in two places; the ribbon ends form incomplete barrel; jelly-roll
1. AFP III-like domain [51269] (1)
  duplication: consists of two structural repeats related by pseudo dyad
  uperfamily
  1. AFP III-like domain [51270] (5)
    Pfam 01354
2. SET domain [82199] (3)
  duplication: the core is composed of two structural repeats similar to (circularly permuted) repeats of AFPIII
  also contains a substrate-binding alpha+beta subdomain inserted in the core
  uperfamily
  1. Histone lysine methyltransferases [82200] (3)
    contains metal-binding preSET and postSET domains
  2. Viral histone H3 Lysine 27 Methyltransferase [82207] (1)
    consists of SET domain only; dimeric
  3. RuBisCo LSMT catalytic domain [82210] (1)
3. Head decoration protein D (gpD, major capsid protein D) [51274] (1)
  uperfamily
  1. Head decoration protein D (gpD, major capsid protein D) [51275] (2)
4. Urease, beta-subunit [51278] (1)
  uperfamily
  1. Urease, beta-subunit [51279] (3)
5. MoeA C-terminal domain-like [63867] (1)
  uperfamily
  1. MoeA C-terminal domain-like [63868] (5)
6. dUTPase-like [51283] (1)
  forms tight trimer through an additional beta-sheet in each subunit
  subunit beta-sheets are orthogonally packed around the three-fold axis
  uperfamily
  1. dUTPase-like [51284] (9)
7. Tlp20, baculovirus telokin-like protein [51289] (1)
  similar to dUTPase in fold and trimeric assembly
  uperfamily
  1. Tlp20, baculovirus telokin-like protein [51290] (1)
PheT/TilS domain [56036] (1)
core: 3 layers; contains beta-sandwich of unusual topology
1. PheT/TilS domain [56037] (2)
  contains putative tRNA-binding structural motif
  uperfamily
  1. tRNA-Ile-lysidine synthetase, TilS, C-terminal domain [116720] (1)
    PfamB 001050
  2. B3/B4 domain of PheRS, PheT [56038] (1)
    Pfam 03483; decorated with additional structures
C-terminal autoproteolytic domain of nucleoporin nup98 [82214] (1)
multisheet protein with a mixture of beta-sandwich and beta-prism features
1. C-terminal autoproteolytic domain of nucleoporin nup98 [82215] (1)
  uperfamily
  1. C-terminal autoproteolytic domain of nucleoporin nup98 [82216] (1)
Pseudo beta-prism [141657] (1)
beta-sandwich with one regular beta-sheet and the other beta-sheet bent in the middle with a set of aligned beta-bulges
1. Bacteriophage trimeric proteins domain [141658] (2)
  found in phage proteins that form trimers, but is not involved in the trimerisation
  uperfamily
  1. Mtd domain-like [141659] (1)
  2. Lactophage receptor-binding protein N-terminal domain [141662] (1)
SARS ORF9b-like [141665] (1)
complex dimeric fold with three intersubunit beta-sheets packed around a single core
1. 'SARS ORF9b-like [141666] (1)
  uperfamily
  1. SARS ORF9b-like [141667] (1)
    PfamB 005852
Adsorption protein p2 [89427] (1)
multisheet protein containing partial beta-propeller and beta-sandwich regions
1. Adsorption protein p2 [89428] (1)
  uperfamily
  1. Adsorption protein p2 [89429] (1)
Baseplate structural protein gp8 [89432] (1)
multisheet protein with a mixture of beta-sandwich and beta-barrel features
1. Baseplate structural protein gp8 [89433] (1)
  uperfamily
  1. Baseplate structural protein gp8 [89434] (1)
Hedgehog/intein (Hint) domain [51293] (1)
complex fold made of five beta-hairpin units and a b-ribbon arc
1. Hedgehog/intein (Hint) domain [51294] (2)
  duplication: contains two intertwined structural repeats
  uperfamily
  1. Hedgehog C-terminal (Hog) autoprocessing domain [51295] (1)
  2. Intein (protein splicing domain) [51298] (4)
LexA/Signal peptidase [51305] (1)
complex fold made of several coiled beta-sheets; contains an SH3-like barrel
1. LexA/Signal peptidase [51306] (2)
  uperfamily
  1. LexA-related [51307] (3)
  2. Type 1 signal peptidase [51312] (1)
    contains additional all-beta subdomain inserted in the superfamily fold
Cloacin translocation domain [69368] (1)
complex fold made of several coiled beta-sheets
1. Cloacin translocation domain [69369] (1)
  uperfamily
  1. Cloacin translocation domain [69370] (2)
    Pfam 03515
Mss4-like [51315] (1)
complex fold made of several coiled beta-sheets
1. Mss4-like [51316] (4)
  duplication: tandem repeat of two similar structural motifs
  uperfamily
  1. RabGEF Mss4 [51317] (2)
    contains zinc-binding site
  2. Translationally controlled tumor protein TCTP (histamine-releasing factor) [63873] (3)
    contains an insertion of alpha helical hairpin; lacks zinc-binding site
  3. SelR domain [75041] (2)
  4. Glutathione-dependent formaldehyde-activating enzyme, Gfa [117338] (1)
    Pfam 04828; DUF636
Cyanovirin-N [51321] (1)
complex fold
1. Cyanovirin-N [51322] (1)
  duplication: tandem repeat of two homologous motifs made three stranded beta-sheet and beta-hairpins
  uperfamily
  1. Cyanovirin-N [51323] (1)
Tp47 lipoprotein, N-terminal domain [82219] (1)
complex fold; consists of two intertwined subdomains
1. Tp47 lipoprotein, N-terminal domain [82220] (1)
  uperfamily
  1. Tp47 lipoprotein, N-terminal domain [82221] (1)
Methuselah ectodomain [63876] (1)
complex fold
1. Methuselah ectodomain [63877] (1)
  duplication: contains two similar sub domains connected by a structured linker
  uperfamily
  1. Methuselah ectodomain [63878] (1)
Head-binding domain of phage P22 tailspike protein [51326] (1)
complex fold made of bifurcated and partly folded beta-sheet
1. Head-binding domain of phage P22 tailspike protein [51327] (1)
  uperfamily
  1. Head-binding domain of phage P22 tailspike protein [51328] (1)
E2 regulatory, transactivation domain [51331] (1)
complex fold made of bifurcated and coiled beta-sheets
1. E2 regulatory, transactivation domain [51332] (1)
  uperfamily
  1. E2 regulatory, transactivation domain [51333] (3)
MoeA N-terminal region -like [63881] (1)
complex fold made of bifurcated and coiled b-sheets
1. MoeA N-terminal region -like [63882] (1)
  uperfamily
  1. MoeA N-terminal region -like [63883] (5)
MOSC N-terminal domain-like [141672] (1)
complex fold; comprises a beta-hairpin and a meander 3-stranded sheet packed against beta-barrel: closed, n=5, S=8; contains three short helices
1. MOSC N-terminal domain-like [141673] (1)
  uperfamily
  1. MOSC N-terminal domain-like [141674] (1)
    Pfam 03476
MAL13P1.257-like [141677] (1)
complex fold; duplication: consists of two intertwinned structural repeats related by pseudo dyad
1. MAL13P1.257-like [141678] (1)
  uperfamily
  1. MAL13P1.257-like [141679] (1)
    PANTHER 12857; DUF866_euk
Composite domain of metallo-dependent hydrolases [51337] (1)
pseudobarrel; mixed sheet of 7 strand folded upon itself and "buckled" by two beta-turns
1. Composite domain of metallo-dependent hydrolases [51338] (11)
  this domain is interrupted by the catalytic beta/alpha barrel domain
  uperfamily
  1. Cytosine deaminase [69373] (1)
  2. alpha-Subunit of urease [51339] (3)
  3. Hydantoinase (dihydropyrimidinase) [75044] (9)
  4. SAH/MTA deaminase-like [82224] (5)
  5. Isoaspartyl dipeptidase [89438] (1)
  6. N-acetylglucosamine-6-phosphate deacetylase, NagA [82227] (3)
  7. D-aminoacylase [82230] (1)
  8. Adenine deaminase [141689] (1)
  9. Zn-dependent arginine carboxypeptidase-like [159340] (3)
  10. Imidazolonepropionase-like [159347] (4)
  11. DR0824-like [159355] (1)
Epsilon subunit of F1F0-ATP synthase N-terminal domain [51343] (1)
pseudobarrel: sandwich of two sheets packed at a positive interstrand angle and interconnected with many short turns
1. Epsilon subunit of F1F0-ATP synthase N-terminal domain [51344] (1)
  uperfamily
  1. Epsilon subunit of F1F0-ATP synthase N-terminal domain [51345] (2)
N-terminal domain of MutM-like DNA repair proteins [81625] (1)
pseudobarrel; capped on both ends by alpha-helices
1. N-terminal domain of MutM-like DNA repair proteins [81624] (1)
  uperfamily
  1. N-terminal domain of MutM-like DNA repair proteins [81623] (6)
Hypothetical protein YojF [89441] (1)
pseudobarrel; capped at one end by an alpha-helix
1. Hypothetical protein YojF [89442] (1)
  uperfamily
  1. Hypothetical protein YojF [89443] (1)
DNA-binding pseudobarrel domain [101935] (1)
core: barrel, open; n=7, S*=10; capped with helices at both ends; partial similarity to the AbrB/MazE/MraZ-like fold (scop_cf 89446)
1. DNA-binding pseudobarrel domain [101936] (2)
  uperfamily
  1. Type II restriction endonuclease effector domain [101937] (1)
  2. B3 DNA binding domain [117343] (2)
    Pfam 02362
Double-split beta-barrel [89446] (2)
pseudobarrel; capped on both ends by alpha-helices
1. AbrB/MazE/MraZ-like [89447] (3)
  members of this superfamily are known or predicted to have DNA-binding function
  uperfamily
  1. Kis/PemI addiction antidote [89448] (1)
    forms intertwined homodimer
  2. AbrB N-terminal domain-like [54743] (2)
    dimeric fold similar to MazE; the DNA-binding site is similar to the conserved surface site of MraZ
  3. Hypothetical protein MraZ [102020] (1)
    duplication: contains two interlocking repeats of similar sequence arranged as subunits in the MazE homodimer
2. AF2212/PG0164-like [141694] (2)
  six-stranded barrel, topologically similar to the Reductase/isomerase/elongation factor domain fold (scop_cf 50412)
  uperfamily
  1. PG0164-like [141695] (1)
    duplication: comprises two intertwinned beta(2)-alpha-beta structural repeats
  2. AF2212-like [159360] (1)
    Pfam 01954; DUF104; intertwinned homodimer of beta(2)-loop-beta subunits; the capping helices are replaced with extended loops
PUA domain-like [88696] (1)
pseudobarrel; mixed folded sheet of 5 strands; order 13452; strand 1 and 3 are parallel to each other
1. PUA domain-like [88697] (13)
  uperfamily
  1. PUA domain [88698] (10)
    RNA-binding domain
  2. ATP sulfurylase N-terminal domain [63801] (5)
    contains extra structures; some similarity to the PK beta-barrel domain
  3. YggJ N-terminal domain-like [89451] (3)
  4. Hypothetical protein EF3133 [110339] (1)
    Pfam 06171; DUF984
  5. Hypothetical protein TTHA0113 [117348] (1)
    Pfam 04266; DUF437
  6. ProFAR isomerase associated domain [117351] (2)
    Pfam 07060; DUF1530
  7. yqfB-like [117356] (1)
    Pfam 06164; DUF978
  8. Atu2648/PH1033-like [141703] (6)
    Pfam 01878; DUF55
  9. Hypothetical RNA methyltransferase domain (HRMD) [141716] (3)
    N-terminal part of Pfam 03602, structurally similar to PUA domain family
  10. LON domain-like [141723] (2)
    Pfam 02190
  11. PrgU-like [159365] (1)
    Pfam 09627
  12. SRA domain-like [159368] (2)
    Pfam 02182; recognizes the modified cytosine base (m5C) by flipping it out of DNA
  13. YtmB-like [159372] (1)
    PfamB 020780
AXH domain [102030] (1)
pseudobarrel; some similarity to OB-fold
1. AXH domain [102031] (1)
  uperfamily
  1. AXH domain [102032] (1)
FimD N-terminal domain-like [141728] (1)
pseudo barrel, capped by an alpha-helix; some topological similarity to the PRC-barrel domain (scop_sf 50346) and the N-terminal domain of Glutamine synthetase (scop_sf 54368)
1. FimD N-terminal domain-like [141729] (1)
  uperfamily
  1. Usher N-domain [141730] (1)
    N-terminal part of Pfam 00577
HisI-like [141733] (1)
pseudo barrel, capped by an alpha-helix; contains a beta-triangle structure on one side; some topological similarity to the Ribosomal protein L25-like fold (scop_cf 50714) and the N-terminal domain of Glutamine synthetase (scop_sf 54368)
1. HisI-like [141734] (1)
  uperfamily
  1. HisI-like [141735] (1)
    Pfam 01502; PRA-CH; metalloenzyme, probable biological unit is dimeric
MFPT repeat-like [141738] (1)
consists of two similar pseudo barrel subdomains with structural similarity to a circularly permuted SAND domain (scop_fa 63764)
1. MFPT repeat-like [141739] (1)
  uperfamily
  1. MFPT repeat [141740] (2)
    PfamB 008194
P-domain of calnexin/calreticulin [63886] (1)
non-globular proline-rich hairpin
1. P-domain of calnexin/calreticulin [63887] (1)
  uperfamily
  1. P-domain of calnexin/calreticulin [63888] (2)