SCOPe 2.06: Family c.37.1.20: Extended AAA-ATPase domain

Lineage for Family c.37.1.20: Extended AAA-ATPase domain

1. Root: SCOPe 2.06

2. Class c: Alpha and beta proteins (a/b) [51349] (148 folds)

3. Fold c.37: P-loop containing nucleoside triphosphate hydrolases [52539] (1 superfamily)
   3 layers: a/b/a, parallel or mixed beta-sheets of variable sizes

4. Superfamily c.37.1: P-loop containing nucleoside triphosphate hydrolases [52540] (26 families)
   division into families based on beta-sheet topologies

5. Family c.37.1.20: Extended AAA-ATPase domain [81269] (29 proteins)
   fold is similar to that of RecA, but lacks the last two strands, followed by a family-specific Arg-finger domain

Proteins:

1. AAA domain of cell division protein FtsH [82418] (3 species)
   ATP-dependent protease

   1. Species Escherichia coli [TaxId:562] [82419] (1 PDB entry)

   2. Species Thermotoga maritima [TaxId:2336] [142325] (3 PDB entries)
      Uniprot Q9WZ49 150-402

   3. Species Thermus thermophilus [TaxId:274] [82420] (4 PDB entries)

2. Archaeal ATPase SSO1545 [142326] (1 species)
   member of Pfam PF01637 family; overall structural similarity to the archael CDC6-like protein APE0102

   • Species Sulfolobus solfataricus [TaxId:2287] [142327] (1 PDB entry)
     Uniprot Q97Y08 1-283

3. ATPase domain of protease Lon (La) [102393] (2 species)

   1. Species Brevibacillus thermoruber [TaxId:33942] [227843] (1 PDB entry)

   2. Species Escherichia coli [TaxId:562] [102394] (1 PDB entry)

4. ATPase subunit of magnesium chelatase, BchI [64040] (1 species)

   • Species Rhodobacter capsulatus [TaxId:1061] [64041] (1 PDB entry)

5. CDC6, N-domain [52715] (1 species)
   contains "winged helix" DNA-binding domain after the family specific domains

   • Species Pyrobaculum aerophilum [TaxId:13773] [52716] (1 PDB entry)

6. CDC6-like protein APE0152, N-terminal domain [117556] (1 species)

   • Species Aeropyrum pernix [TaxId:56636] [117557] (2 PDB entries)
     Uniprot Q9YFU8

7. CED-4, NB-ARC domain [159577] (1 species)
   belongs to Pfam PF00931

   • Species Nematode (Caenorhabditis elegans) [TaxId:6239] [159578] (1 PDB entry)
     Uniprot P30429 109-385

8. Chromosomal replication initiation factor DnaA [82416] (1 species)
   contains TrpR-like DNA-binding domain after the family specific domains

   • Species Aquifex aeolicus [TaxId:63363] [82417] (2 PDB entries)

9. ClpA, an Hsp100 chaperone, AAA+ modules [82421] (1 species)
   duplication: two AAA+ modules; the first module is structurally similar to the CDC6 module whereas the second module to the HslU module

   • Species Escherichia coli [TaxId:562] [82422] (2 PDB entries)
     Uniprot Q83LR6

10. ClpB, AAA+ modules [75211] (2 species)
    ATPase subunit of ATP-dependent protease; similar domain organization to ClpA

    1. Species Escherichia coli [TaxId:562] [75212] (1 PDB entry)

    2. Species Thermus thermophilus [TaxId:274] [102395] (1 PDB entry)

11. ClpX [102391] (1 species)
    ATPase subunit of ATP-dependent protease

    • Species Helicobacter pylori [TaxId:210] [102392] (1 PDB entry)

12. delta prime subunit of DNA polymerase III, N-domain [52711] (1 species)
    contains additional alpha-helical domain after the family specific domains

    • Species Escherichia coli [TaxId:562] [52712] (6 PDB entries)
      Uniprot P28631

13. delta subunit of DNA polymerase III, N-domain [64033] (1 species)

    • Species Escherichia coli [TaxId:562] [64034] (5 PDB entries)
      Uniprot P28630

14. gamma subunit of DNA polymerase III, N-domain [64031] (2 species)

    1. Species Escherichia coli [TaxId:562] [64032] (3 PDB entries)
       Uniprot P06710 5-368

    2. Species Thermotoga maritima [TaxId:2336] [142324] (1 PDB entry)
       Uniprot Q9WZM9 11-208

15. Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein [52717] (1 species)

    • Species Chinese hamster (Cricetulus griseus) [TaxId:10029] [52718] (2 PDB entries)

16. Holliday junction helicase RuvB [52713] (2 species)
    contains "winged helix" DNA-binding domain after the family specific domains

    1. Species Thermotoga maritima [TaxId:2336] [64037] (6 PDB entries)

    2. Species Thermus thermophilus [TaxId:274] [52714] (3 PDB entries)

17. HslU [52721] (2 species)
    ATPase subunit of ATP-dependent protease

    1. Species Escherichia coli [TaxId:562] [52722] (11 PDB entries)

    2. Species Haemophilus influenzae [TaxId:727] [52723] (6 PDB entries)

18. Membrane fusion ATPase VCP/p97 [64038] (2 species)

    1. Species Homo sapiens [TaxId:9606] [313486] (4 PDB entries)

    2. Species Mouse (Mus musculus) [TaxId:10090] [64039] (4 PDB entries)

19. Papillomavirus large T antigen helicase domain [89688] (1 species)

    • Species Simian virus 40 [TaxId:10633] [89689] (5 PDB entries)
      Uniprot P03070 265-627

20. Rep 40 protein helicase domain [110564] (1 species)

    • Species Adeno-associated virus 2, AAV2 [TaxId:10804] [110565] (2 PDB entries)
      Uniprot P03132 225-490

21. Replication factor C [64035] (1 species)
    contains additional alpha-helical domain after the family specific domains

    • Species Pyrococcus furiosus [TaxId:2261] [64036] (1 PDB entry)

22. Replication factor C1 [110566] (1 species)

    • Species Baker's yeast (Saccharomyces cerevisiae) [TaxId:4932] [110567] (1 PDB entry)
      Uniprot P38630 295-696

23. Replication factor C2 [110572] (1 species)

    • Species Baker's yeast (Saccharomyces cerevisiae) [TaxId:4932] [110573] (1 PDB entry)
      Uniprot P40348

24. Replication factor C3 [110570] (1 species)

    • Species Baker's yeast (Saccharomyces cerevisiae) [TaxId:4932] [110571] (1 PDB entry)
      Uniprot P38629

25. Replication factor C4 [110568] (1 species)

    • Species Baker's yeast (Saccharomyces cerevisiae) [TaxId:4932] [110569] (1 PDB entry)
      Uniprot P40339

26. Replication factor C5 [110574] (1 species)

    • Species Baker's yeast (Saccharomyces cerevisiae) [TaxId:4932] [110575] (1 PDB entry)
      Uniprot P38251

27. Replication protein E1 helicase domain [110576] (1 species)

    • Species Human papillomavirus type 18 [TaxId:333761] [110577] (1 PDB entry)
      Uniprot P06789 428-629 # structure of the origin-binding domain (210-354) is also known, 1r9w (103119)

28. Transcriptional activator sigm54 (NtrC1), C-terminal domain [102389] (1 species)

    • Species Aquifex aeolicus [TaxId:63363] [102390] (2 PDB entries)

29. automated matches [190766] (4 species)
    not a true protein

    1. Species Aquifex aeolicus [TaxId:63363] [226012] (1 PDB entry)

    2. Species Human (Homo sapiens) [TaxId:9606] [255867] (6 PDB entries)

    3. Species Jc polyomavirus [TaxId:10632] [319763] (4 PDB entries)

    4. Species Malaria parasite (Plasmodium falciparum) [TaxId:5833] [187983] (1 PDB entry)

More info for Family c.37.1.20: Extended AAA-ATPase domain

Timeline for Family c.37.1.20: Extended AAA-ATPase domain:

• Family c.37.1.20: Extended AAA-ATPase domain first appeared in SCOP 1.63
  
• Family c.37.1.20: Extended AAA-ATPase domain appears in SCOPe 2.05
  
• Family c.37.1.20: Extended AAA-ATPase domain appears in SCOPe 2.07
  
• Family c.37.1.20: Extended AAA-ATPase domain appears in the current release, SCOPe 2.08