Fold: Four-helical up-and-down bundle

core: 4 helices; bundle, closed or partly opened, left-handed twist; up-and-down

Lineage:

1. Root: scop
2. Class: All alpha proteins [46456]
3. Fold: Four-helical up-and-down bundle [47161]
   core: 4 helices; bundle, closed or partly opened, left-handed twist; up-and-down

Superfamilies:

1. Apolipoprotein [47162] (1)
   uperfamily
   1. Apolipoprotein [47163] (3)
      Can exist in a coiled-coil oligomeric form, see PDB entry 1AV1
      family may also include the five-helical bundle protein Apolipophorin-III
2. Aspartate receptor, ligand-binding domain [47170] (1)
   uperfamily
   1. Aspartate receptor, ligand-binding domain [47171] (2)
3. Cytochromes [47175] (2)
   Heme-containing proteins
   uperfamily
   1. Cytochrome b562 [47176] (1)
   2. Cytochrome c'-like [47179] (9)
4. Hemerythrin-like [47188] (1)
   uperfamily
   1. Hemerythrin-like [47189] (3)
      Iron-binding proteins
5. TMV-like viral coat proteins [47195] (1)
   uperfamily
   1. TMV-like viral coat proteins [47196] (3)
6. FKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP) [47212] (1)
   uperfamily
   1. FKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP) [47213] (1)
7. Proteasome activator [47216] (1)
   uperfamily
   1. Proteasome activator [47217] (2)
8. alpha-catenin/vinculin-like [47220] (2)
   uperfamily
   1. alpha-catenin/vinculin [47221] (4)
      possible duplication: contains several domains of this fold
      The listed PDB entries contain different large fragments but not the whole proteins
   2. VBS domain [140408] (1)
      Pfam 08913; Vinculin Binding Site
9. FAT domain of focal adhesion kinase [68993] (1)
   uperfamily
   1. FAT domain of focal adhesion kinase [68994] (3)
10. Oxygen-evolving enhancer protein 3, [101112] (1)
    uperfamily
    1. Oxygen-evolving enhancer protein 3, [101113] (1)
11. Histidine-containing phosphotransfer domain, HPT domain [47226] (6)
    contains additional, fifth helix at the N-terminus
    uperfamily
    1. Aerobic respiration control sensor protein, ArcB [47227] (1)
    2. Phosphorelay protein-like [47230] (3)
    3. Chemotaxis protein CheA P1 domain [63512] (2)
    4. Sensor-like histidine kinase YojN, C-terminal domain [116868] (1)
    5. Phosphorelay protein luxU [116871] (1)
    6. SphA-like [158394] (1)
12. Bacterial GAP domain [47233] (1)
    contains extra helices in the loops at one end of the bundle
    uperfamily
    1. Bacterial GAP domain [47234] (3)
13. Outer surface protein C (OspC) [63515] (1)
    uperfamily
    1. Outer surface protein C (OspC) [63516] (1)
14. Flagellar export chaperone FliS [101116] (1)
    can form closed, open and helix-swapped bundles
    uperfamily
    1. Flagellar export chaperone FliS [101117] (2)
15. Domain of the SRP/SRP receptor G-proteins [47364] (1)
    uperfamily
    1. Domain of the SRP/SRP receptor G-proteins [47365] (7)
16. FAD-dependent thiol oxidase [69000] (1)
    uperfamily
    1. FAD-dependent thiol oxidase [69001] (2)
17. Group V grass pollen allergen [81736] (1)
    uperfamily
    1. Group V grass pollen allergen [81737] (2)
18. Nucleotidyltransferase substrate binding subunit/domain [81593] (4)
    uperfamily
    1. Family 1 bi-partite nucleotidyltransferase subunit [81740] (2)
    2. HEPN domain [89022] (2)
    3. Kanamycin nucleotidyltransferase (KNTase), C-terminal domain [81592] (1)
       N-terminal catalytic domain is followed by an all-alpha domain
    4. Glutamine synthase adenylyltransferase GlnE, domain 2 [109767] (1)
19. RecG, N-terminal domain [69008] (1)
    uperfamily
    1. RecG, N-terminal domain [69009] (1)
20. Colicin D immunity protein [101125] (1)
    uperfamily
    1. Colicin D immunity protein [101126] (1)
21. Nickel-containing superoxide dismutase, NiSOD [109770] (1)
    uperfamily
    1. Nickel-containing superoxide dismutase, NiSOD [109771] (2)
22. Mannose-6-phosphate receptor binding protein 1 (Tip47), C-terminal domain [109775] (1)
    contains extra alpha+beta subdomain formed by the N- and C-termini.
    uperfamily
    1. Mannose-6-phosphate receptor binding protein 1 (Tip47), C-terminal domain [109776] (1)
23. Domain from hypothetical 2610208m17rik protein [109779] (1)
    uperfamily
    1. Domain from hypothetical 2610208m17rik protein [109780] (1)
24. TrmE connector domain [116878] (1)
    uperfamily
    1. TrmE connector domain [116879] (1)
25. YppE-like [140415] (1)
    flattened bundle at one end with helices 2 and coming in contact and separating helices 1 and 3
    uperfamily
    1. YppE-like [140416] (3)
       Pfam 08807; DUF1798
26. MW0975(SA0943)-like [140423] (1)
    open bundle; there is a long groove between helices 1 and 4
    uperfamily
    1. MW0975(SA0943)-like [140424] (1)
27. VPS28 C-terminal domain-like [140427] (1)
    uperfamily
    1. VPS28 C-terminal domain-like [140428] (1)
       C-terminal part of Pfam 03997
28. TM1646-like [158397] (1)
    1. TM1646-like [158398] (1)
       Pfam 03885; DUF327

Generated from scop database 1.75 with scopm 1.101 on Wed Jun 3 10:42:06 2009 Copyright © 1994-2009 The scop authors / scop@mrc-lmb.cam.ac.uk