SCOPe 2.07: Family c.2.1.6: 6-phosphogluconate dehydrogenase-like, N-terminal domain

Lineage for Family c.2.1.6: 6-phosphogluconate dehydrogenase-like, N-terminal domain

1. Root: SCOPe 2.07

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

3. Fold c.2: NAD(P)-binding Rossmann-fold domains [51734] (1 superfamily)
   core: 3 layers, a/b/a; parallel beta-sheet of 6 strands, order 321456
   The nucleotide-binding modes of this and the next two folds/superfamilies are similar

4. Superfamily c.2.1: NAD(P)-binding Rossmann-fold domains [51735] (13 families)

5. Family c.2.1.6: 6-phosphogluconate dehydrogenase-like, N-terminal domain [51868] (19 proteins)
   the beta-sheet is extended to 8 strands, order 32145678; strands 7 & 8 are antiparallel to the rest
   C-terminal domains also show some similarity

Proteins:

1. 5,10-methenyltetrahydromethanopterin hydrogenase, HMD [141932] (1 species)

   • Species Methanocaldococcus jannaschii [TaxId:2190] [141933] (6 PDB entries)
     Uniprot Q58194 1-242

2. 6-phosphogluconate dehydrogenase [51871] (2 species)

   1. Species Sheep (Ovis orientalis aries) [TaxId:9940] [51872] (5 PDB entries)

   2. Species Trypanosome (Trypanosoma brucei) [TaxId:5691] [51873] (1 PDB entry)

3. Class I ketol-acid reductoisomerase (KARI) [89532] (1 species)

   • Species Pseudomonas aeruginosa [TaxId:287] [89533] (1 PDB entry)

4. Class II ketol-acid reductoisomerase (KARI) [51869] (1 species)
   contains additional subdomain at the N-terminus, partly ordered

   • Species Spinach (Spinacia oleracea) [TaxId:3562] [51870] (2 PDB entries)

5. Coenzyme F420H2:NADP+ oxidoreductase (FNO) [69421] (1 species)
   lacks all but the first helix of the C-terminal all-alpha domain

   • Species Archaeoglobus fulgidus [TaxId:2234] [69422] (2 PDB entries)

6. Conserved hypothetical protein MTH1747 [75113] (1 species)

   • Species Methanobacterium thermoautotrophicum [TaxId:145262] [75114] (1 PDB entry)

7. Fatty oxidation complex alpha subunit, middle domain [110432] (1 species)

   • Species Pseudomonas fragi [TaxId:296] [110433] (4 PDB entries)
     Uniprot P28793

8. GDP-mannose 6-dehydrogenase [89534] (1 species)

   • Species Pseudomonas aeruginosa [TaxId:287] [89535] (3 PDB entries)

9. Glycerol-3- phosphate dehydrogenase [51881] (2 species)

   1. Species Archaeoglobus fulgidus [TaxId:2234] [117433] (1 PDB entry)
      Uniprot O29390

   2. Species Trypanosome (Leishmania mexicana) [TaxId:5665] [51882] (7 PDB entries)

10. Hydroxyisobutyrate dehydrogenase [102171] (4 species)

    1. Species Pseudomonas aeruginosa [TaxId:208964] [311276] (1 PDB entry)

    2. Species Pseudomonas aeruginosa [TaxId:287] [159424] (2 PDB entries)
       Uniprot Q9I5I6 1-162

    3. Species Salmonella typhimurium [TaxId:90371] [110431] (2 PDB entries)
       Uniprot Q8ZLV8

    4. Species Thermus thermophilus [TaxId:274] [102172] (2 PDB entries)
       structural genomics

11. Hypothetical protein TM1727 [159426] (1 species)
    ProC structural homologue

    • Species Thermotoga maritima [TaxId:2336] [159427] (1 PDB entry)
      Uniprot Q9X250 2-154

12. Ketopantoate reductase PanE [69419] (1 species)

    • Species Escherichia coli [TaxId:562] [69420] (4 PDB entries)

13. Mannitol 2-dehydrogenase [82301] (1 species)

    • Species Pseudomonas fluorescens [TaxId:294] [82302] (2 PDB entries)

14. N-(1-D-carboxylethyl)-L-norvaline dehydrogenase [51879] (1 species)

    • Species Arthrobacter, strain 1c [TaxId:1663] [51880] (1 PDB entry)

15. Prephenate dehydrogenase TyrA [141929] (3 species)

    1. Species Aquifex aeolicus [TaxId:63363] [141930] (1 PDB entry)
       Uniprot O67636 30-200

    2. Species Haemophilus influenzae [TaxId:727] [159425] (1 PDB entry)
       Uniprot P43902 92-243

    3. Species Synechocystis sp. PCC 6803 [TaxId:1148] [141931] (1 PDB entry)
       Uniprot P73906 1-165

16. Pyrroline-5-carboxylate reductase ProC [117434] (2 species)

    1. Species Neisseria meningitidis, serogroup B [TaxId:487] [117435] (3 PDB entries)
       Uniprot Q9K1N1

    2. Species Streptococcus pyogenes [TaxId:1314] [141928] (2 PDB entries)
       Uniprot Q9A1S9 1-152

17. Short chain L-3-hydroxyacyl CoA dehydrogenase [51874] (2 species)

    1. Species Human (Homo sapiens) [TaxId:9606] [51875] (11 PDB entries)

    2. Species Pig (Sus scrofa) [TaxId:9823] [51876] (1 PDB entry)

18. UDP-glucose dehydrogenase (UDPGDH) [51877] (1 species)

    • Species Streptococcus pyogenes [TaxId:1314] [51878] (2 PDB entries)

19. automated matches [226987] (4 species)
    not a true protein

    1. Species Azotobacter vinelandii [TaxId:322710] [271794] (1 PDB entry)

    2. Species Human (Homo sapiens) [TaxId:9606] [226137] (1 PDB entry)

    3. Species Pseudomonas aeruginosa [311212] (1 PDB entry)

    4. Species Thermotoga maritima [TaxId:2336] [255231] (1 PDB entry)

More info for Family c.2.1.6: 6-phosphogluconate dehydrogenase-like, N-terminal domain

Timeline for Family c.2.1.6: 6-phosphogluconate dehydrogenase-like, N-terminal domain:

• Family c.2.1.6: 6-phosphogluconate dehydrogenase-like, N-terminal domain first appeared (with stable ids) in SCOP 1.55
  
• Family c.2.1.6: 6-phosphogluconate dehydrogenase-like, N-terminal domain appears in SCOPe 2.06
  
• Family c.2.1.6: 6-phosphogluconate dehydrogenase-like, N-terminal domain appears in the current release, SCOPe 2.08