SCOPe 2.01: Family c.37.1.19: Tandem AAA-ATPase domain

Lineage for Family c.37.1.19: Tandem AAA-ATPase domain

1. Root: SCOPe 2.01

2. Class c: Alpha and beta proteins (a/b) [51349] (147 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] (25 families)
   division into families based on beta-sheet topologies

5. Family c.37.1.19: Tandem AAA-ATPase domain [81268] (24 proteins)
   duplication: tandem repeat of two RecA-like (AAA) domains

Proteins:

1. ATP-dependent RNA helicase DDX25 [142310] (1 species)

   • Species Human (Homo sapiens) [TaxId:9606] [142311] (1 PDB entry)
     Uniprot Q9UHL0 307-474

2. DEAD box RNA helicase rck/p54 [102387] (1 species)

   • Species Human (Homo sapiens) [TaxId:9606] [102388] (1 PDB entry)

3. DEXX box DNA helicase [52701] (2 species)
   each AAA domain contains an all-alpha insert subdomain

   1. Species Bacillus stearothermophilus, PcrA [TaxId:1422] [52702] (5 PDB entries)

   2. Species Escherichia coli, RepD [TaxId:562] [52703] (1 PDB entry)

4. DNA repair protein RAD25 [142318] (1 species)
   shares with the DNA helicase UvsW (102396) extra N-terminal alpha+beta subdomain that might be related to the DNA repair protein MutS domain I (55271)

   • Species Archaeoglobus fulgidus [TaxId:2234] [142319] (3 PDB entries)
     Uniprot O29889 237-436! Uniprot O29889 238-434! Uniprot O29889 3-236! Uniprot O29889 4-209

5. Exodeoxyribonuclease V alpha chain (RecD) [117554] (1 species)
   contains extra N-terminal alpha+beta (sub)domain (~100 residues)

   • Species Escherichia coli [TaxId:562] [117555] (1 PDB entry)
     Uniprot P04993

6. Exodeoxyribonuclease V beta chain (RecB), N-terminal domain [117550] (1 species)
   each AAA domain contains an all-alpha insert subdomain

   • Species Escherichia coli [TaxId:562] [117551] (1 PDB entry)
     Uniprot P08394

7. Exodeoxyribonuclease V gamma chain (RecC), N-terminal domain [117552] (1 species)
   each AAA domain contains an all-alpha insert subdomain

   • Species Escherichia coli [TaxId:562] [117553] (1 PDB entry)
     Uniprot P07648

8. Hel308 helicase [159575] (1 species)

   • Species Archaeoglobus fulgidus [TaxId:2234] [159576] (2 PDB entries)

9. Helicase of the SNF2/Rad54 hamily [142312] (1 species)

   • Species Sulfolobus solfataricus [TaxId:2287] [142313] (3 PDB entries)
     Uniprot Q97XQ7 432-661! Uniprot Q97XQ7 662-802! Uniprot Q97XQ7 663-802

10. Initiation factor 4a [52706] (2 species)
    homologous to UvrB

    1. Species Baker's yeast (Saccharomyces cerevisiae) [TaxId:4932] [52707] (4 PDB entries)

    2. Species Human (Homo sapiens) [TaxId:9606] [142305] (1 PDB entry)
       Uniprot P60842 21-238
       4A-I

11. Nucleotide excision repair enzyme UvrB [52708] (2 species)
    contains large insertions in the first AAA domain

    1. Species Bacillus caldotenax [TaxId:1395] [52710] (4 PDB entries)
       Uniprot P56981

    2. Species Thermus thermophilus [TaxId:274] [52709] (2 PDB entries)

12. Probable ATP-dependent RNA helicase DDX48 [142314] (1 species)
    Eukaryotic translation initiation factor 4A isoform 3

    • Species Human (Homo sapiens) [TaxId:9606] [142315] (3 PDB entries)
      Uniprot P38919 22-243! Uniprot P38919 244-411

13. Probable DEAD box RNA helicase YqfR [102383] (1 species)

    • Species Bacillus stearothermophilus [TaxId:1422] [102384] (1 PDB entry)

14. Putative ATP-dependent RNA helicase DHH1 [142322] (1 species)

    • Species Baker's yeast (Saccharomyces cerevisiae) [TaxId:4932] [142323] (1 PDB entry)
      Uniprot P39517 252-422! Uniprot P39517 46-251

15. putative ATP-dependent RNA helicase PF2015 [142308] (1 species)
    separate structures of other domains are known: the middle nuclease domain (89718) and the C-terminal RuvA-like HhH domain (PDB 1x2i)

    • Species Pyrococcus furiosus [TaxId:2261] [142309] (1 PDB entry)
      Uniprot Q8TZH8 2-201! Uniprot Q8TZH8 202-487

16. putative ATP-dependent RNA helicase VlgB [142306] (1 species)

    • Species Flatworm (Dugesia japonica) [TaxId:6161] [142307] (1 PDB entry)
      Uniprot O97032 164-401

17. Putative DEAD box RNA helicase [52704] (1 species)
    homologous to eIF4a and UvrB

    • Species Methanococcus jannaschii [TaxId:2190] [52705] (1 PDB entry)

18. Rad54-like, Rad54L [142316] (1 species)

    • Species Zebrafish (Danio rerio) [TaxId:7955] [142317] (1 PDB entry)
      Uniprot Q7ZV09 390-735! Uniprot Q7ZV09 92-389

19. RecG helicase domain [69494] (1 species)

    • Species Thermotoga maritima [TaxId:2336] [69495] (1 PDB entry)

20. RecQ helicase domain [102385] (1 species)

    • Species Escherichia coli [TaxId:562] [102386] (2 PDB entries)

21. Spliceosome RNA helicase BAT1 (UAP56) [110562] (1 species)

    • Species Human (Homo sapiens) [TaxId:9606] [110563] (5 PDB entries)
      Uniprot Q13838 45-428

22. Transcription-repair coupling factor, TRCF [142320] (1 species)
    similar to UvrB in the N-terminal part and DEAD helicases in the C-terminal part; also contains CarD-like domain in the middle and TRCF domain at the C-terminus

    • Species Escherichia coli [TaxId:562] [142321] (2 PDB entries)
      Uniprot P30958 2-348! Uniprot P30958 26-333! Uniprot P30958 349-465! Uniprot P30958 546-778! Uniprot P30958 779-989

23. Translocation ATPase SecA, nucleotide-binding domains [82414] (2 species)
    a pre-protein crosslinking domain inserted in the first AAA domain

    1. Species Bacillus subtilis [TaxId:1423] [82415] (4 PDB entries)
       Uniprot P28366

    2. Species Mycobacterium tuberculosis [TaxId:1773] [89687] (2 PDB entries)

24. automated matches [190301] (2 species)
    not a true protein

    1. Species Flatworm (Dugesia japonica) [TaxId:6161] [188089] (1 PDB entry)

    2. Species Human (Homo sapiens) [TaxId:9606] [187108] (1 PDB entry)

More info for Family c.37.1.19: Tandem AAA-ATPase domain

Timeline for Family c.37.1.19: Tandem AAA-ATPase domain:

• Family c.37.1.19: Tandem AAA-ATPase domain first appeared in SCOP 1.63
  
• Family c.37.1.19: Tandem AAA-ATPase domain appears in SCOP 1.75
  
• Family c.37.1.19: Tandem AAA-ATPase domain appears in SCOPe 2.02
  
• Family c.37.1.19: Tandem AAA-ATPase domain appears in the current release, SCOPe 2.08