Structural Classification of Proteins

Family: Amylase, catalytic domain

: members of the family may contain various insert subdomains
in alpha-amylases and closer relatives this domain is usually followed by a common all-beta domain

Lineage:

Root: scop
Class: Alpha and beta proteins (a/b) [51349]
Mainly parallel beta sheets (beta-alpha-beta units)
Fold: TIM beta/alpha-barrel [51350]
contains parallel beta-sheet barrel, closed; n=8, S=8; strand order 12345678
the first seven superfamilies have similar phosphate-binding sites
Superfamily: (Trans)glycosidases [51445]
uperfamily
Family: Amylase, catalytic domain [51446]
members of the family may contain various insert subdomains
in alpha-amylases and closer relatives this domain is usually followed by a common all-beta domain

Protein Domains:

Bacterial alpha-amylase [51447]
1. Bacillus licheniformis [TaxId: 1402] [51448] (4)
2. Chimera (Bacillus amyloliquefaciens) and (Bacillus licheniformis) [TaxId: 1390] [63903] (4)
  the N-terminal 300 residues are from B. amyloliquefaciens
3. Pseudoalteromonas haloplanktis (Alteromonas haloplanktis) [TaxId: 228] [51449] (9)
4. Bacillus subtilis [TaxId: 1423] [51450] (2)
  SQ P00691
5. Bacillus stearothermophilus [TaxId: 1422] [51451] (1)
6. Bacillus sp., ksm-k38 [TaxId: 1409] [89463] (6)
7. Archaeon Pyrococcus woesei [TaxId: 2262] [89464] (3)
8. Bacillus sp. 707 [TaxId: 1416] [117366] (4)
  SQ P19571 38-518
9. Halothermothrix orenii [TaxId: 31909] [141767] (1)
  SQ Q8GPL8 28-436
10. Bacillus halmapalus [TaxId: 79882] [141768] (3)
  SQ P19571 38-431
Maltosyltransferase [63904]
similar to bacterial alpha-amylase; contains larger insertion domain
1. Thermotoga maritima [TaxId: 2336] [63905] (2)
Cyclodextrin glycosyltransferase [51452]
contains two more all-beta domains, one is Immunoglobulin-like and the other is trasthyretin-like
1. Bacillus circulans, different strains [TaxId: 1397] [51453] (36)
2. Bacillus stearothermophilus [TaxId: 1422] [51454] (1)
3. Bacillus stearothermophilus, maltogenic alpha-amylase [TaxId: 1422] [51455] (2)
4. Bacillus sp. 1011, alkaliphilic [TaxId: 1410] [51456] (8)
  SQ P05618
5. Thermoanaerobacterium thermosulfurigenes, EM1 [TaxId: 33950] [51457] (2)
6. Thermoanaerobacterium [TaxId: 28895] [159380] (2)
Animal alpha-amylase [51458]
contains Ca2+-binding subdomain, residues 100-170
1. Pig (Sus scrofa) [TaxId: 9823] [51459] (14)
2. Human (Homo sapiens) [TaxId: 9606] [51460] (43)
  SQ P04746 16-511 ! SQ 04746
3. Yellow mealworm (Tenebrio molitor), larva [TaxId: 7067] [51461] (4)
Fungal alpha-amylases [51462]
1. Aspergillus niger, acid amylase [TaxId: 5061] [51463] (1)
2. Aspergillus oryzae, Taka-amylase [TaxId: 5062] [51464] (8)
Maltogenic amylase, central domain [51465]
contains an additional N-terminal domain
1. Thermus sp. [TaxId: 275] [51466] (2)
2. Bacillus sp., cyclomaltodextrinase [TaxId: 1409] [75060] (1)
3. Thermoactinomyces vulgaris, TVAI [TaxId: 2026] [75061] (9)
4. Thermoactinomyces vulgaris, TVAII [TaxId: 2026] [51467] (25)
Neopullulanase, central domain [82240]
homologous to Maltogenic amylase
1. Bacillus stearothermophilus [TaxId: 1422] [82241] (4)
Cyclomaltodextrinase, central domain [102058]
protein shares similar domain organization with maltogenic amylases but differs in the spatial arrangement of its domains
1. Flavobacterium sp. 92 [TaxId: 197856] [102059] (1)
Maltooligosyl trehalose synthase [82242]
elaborated with several large insertions in the common fold
1. Archaeon Sulfolobus acidocaldarius [TaxId: 2285] [82243] (1)
Glycosyltrehalose trehalohydrolase, central domain [51468]
contains an additional N-terminal domain
1. Archaeon Sulfolobus solfataricus, km1 [TaxId: 2287] [51469] (2)
2. Deinococcus radiodurans [TaxId: 1299] [141769] (9)
  SQ Q9RX51 111-528
1,4-alpha-glucan branching enzyme, central domain [82244]
1. Escherichia coli [TaxId: 562] [82245] (1)
Isoamylase, central domain [51470]
1. Pseudomonas amyloderamosa [TaxId: 32043] [51471] (1)
G4-amylase (1,4-alpha-D-glucan maltotetrahydrolase) [51472]
1. Pseudomonas stutzeri [TaxId: 316] [51473] (9)
Plant alpha-amylase [51474]
1. Barley (Hordeum vulgare), seeds, AMY2 isozyme [TaxId: 4513] [51475] (3)
2. Barley (Hordeum vulgare), AMY1 isozyme [TaxId: 4513] [89465] (10)
4-alpha-glucanotransferase [75062]
1. Thermotoga maritima [TaxId: 2336] [75063] (2)
Oligo-1,6, glucosidase [51476]
1. Bacillus cereus [TaxId: 1396] [51477] (1)
Isomaltulose synthase PalI [89466]
1. Klebsiella sp., lx3 [TaxId: 576] [89467] (1)
Amylosucrase [69384]
1. Neisseria polysaccharea [TaxId: 489] [69385] (10)
Sucrose phosphorylase [102060]
sequence and close structural relationship to amylosucrase; variations in the C-terminal domain fold
1. Bifidobacterium adolescentis [TaxId: 1680] [102061] (5)
Melibiase [75064]
1. Chicken (Gallus gallus) [TaxId: 9031] [75065] (2)
  alpha-N-acetylgalactosaminidase
2. Rice (Oryza sativa) [TaxId: 4530] [89468] (1)
  alpha-galactosidase
3. Human (Homo sapiens) [TaxId: 9606] [102062] (2)
  alpha-galactosidase A
4. Trichoderma reesei [TaxId: 51453] [110349] (2)
  Alpha-galactosidase agl1
  SQ Q92456
Amylomaltase MalQ [51478]
4-alpha-glucanotransferase; single-domain amylase with several insertions in the common fold
1. Thermus aquaticus [TaxId: 271] [51479] (4)
  synonym: Thermus thermophilus
2. Aquifex aeolicus [TaxId: 63363] [141770] (2)
  SQ O66937 1-485
3. Potato (Solanum tuberosum) [TaxId: 4113] [141771] (1)
  SQ Q06801 54-576
A4 beta-galactosidase [82246]
the catalytic domain is very similar to that of the bacterial beta-amylase; but contains a typical alpha-amylase extra domain
1. Thermus thermophilus [TaxId: 274] [82247] (2)
Bacterial beta-amylase [51485]
protein contains additional starch-binding domain
1. Bacillus cereus [TaxId: 1396] [51486] (14)
beta-Amylase [51481]
Common fold covers whole protein structure
1. Soybean (Glycine max) [TaxId: 3847] [51482] (19)
  SQ P10538
2. Barley (Hordeum vulgare) [TaxId: 4513] [51483] (1)
3. Sweet potato (Ipomoea batatas) [TaxId: 4120] [51484] (1)
Pullulanase PulA [159381]
1. Klebsiella pneumoniae [TaxId: 573] [159382] (3)
  SQ P07206 410-972