Structural Classification of Proteins
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Superfamily: DNA/RNA polymerases

"palm" domain has a ferredoxin-like fold, related to that of an adenylyl cyclase domain
link to SUPERFAMILY database - Superfamily

Lineage:

  1. Root: scop
  2. Class: Multi-domain proteins (alpha and beta) [56572]
    Folds consisting of two or more domains belonging to different classes
  3. Fold: DNA/RNA polymerases [56671]
    divided into morphological domains including "palm", "thumb" and "fingers"; the catalytic "palm" domain is conserved to all members
  4. Superfamily: DNA/RNA polymerases [56672]
    "palm" domain has a ferredoxin-like fold, related to that of an adenylyl cyclase domain
    link to SUPERFAMILY database - Superfamily

Families:

  1. DNA polymerase I [56673] (12)
    1. DNA polymerase I (Klenow fragment) [56674]
      1. Escherichia coli [TaxId: 562] [56675] (14) picpic
      2. Thermus aquaticus [TaxId: 271] [56676] (13) picpic
      3. Bacillus stearothermophilus, newly identified strain as yet unnamed [TaxId: 1422] [56677] (45) picpic
        SQ Q5KWC1 299-878 # 99% sequence identity; Geobacillus kaustophilus TaxID:1462
        SQ Q45458 298-876 # 88% sequence identity
    2. T7 phage DNA polymerase [56678]
      1. Bacteriophage T7 [TaxId: 10760] [56679] (16) picpic
        SQ P00581
    3. Family B DNA polymerase [56680]
      1. Escherichia coli [TaxId: 562] [103399] (1) picpic
      2. Bacteriophage RB69 [TaxId: 12353] [56681] (27) picpic
      3. Archaeon Thermococcus gorgonarius [TaxId: 71997] [56682] (3) picpic
      4. Archaeon Thermococcus sp., 9on-7 [TaxId: 35749] [56683] (1) picpic
      5. Archaeon Desulfurococcus tok [TaxId: 108142] [56684] (2) picpic
      6. Archaeon Pyrococcus kodakaraensis [TaxId: 311400] [56685] (2) picpic
        SQ P56689 1-758 # 93% sequence identity; Thermococcus kodakarensis KOD1 TaxID: 69014
      7. Sulfolobus solfataricus [TaxId: 2287] [118192] (1) picpic
        SQ P26811 40-864
    4. phi29 DNA polymerase [118193]
      1. Bacteriophage phi-29 [TaxId: 10756] [118194] (18) picpic
        SQ P03680
  2. Lesion bypass DNA polymerase (Y-family), catalytic domain [100888] (6)
    contains a distinct 'fingers' domain possibly related to the C-terminal subdomain of hypothetical protein Ta1206 (1qw2)
    1. DinB homolog (DBH) [100889]
      1. Archaeon Sulfolobus solfataricus, DNA polymerase IV [TaxId: 2287] [100890] (62) picpic
      2. Archaeon Sulfolobus solfataricus [TaxId: 2287] [100891] (3) picpic
      3. Sulfolobus acidocaldarius Brock et al. 1972 (Sulfolobus acidocaldarius) [TaxId: 2285] [160954] (3) picpic
    2. DNA polymerase eta [100892]
      1. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [100893] (5) picpic
    3. DNA polymerase iota [111295]
      1. Human (Homo sapiens) [TaxId: 9606] [111296] (8) picpic
        SQ Q9UNA4
    4. DNA polymerase kappa [111297]
      1. Human (Homo sapiens) [TaxId: 9606] [111298] (1) picpic
        SQ Q9UBT6 71-517
  3. Reverse transcriptase [56686] (3)
    1. MMLV reverse transcriptase [56687]
      1. Moloney murine leukemia virus, MoMLV [TaxId: 11801] [56688] (22) picpic
        SQ P03355 RE 144-594
    2. HIV-1 reverse transcriptase [56689]
      1. Human immunodeficiency virus type 1 [TaxId: 11676] [56690] (191) picpic
        SQ P04585 159-692 # chain A coverage; chain B is shorter: 162-582 ! SQ P03366 186-725 # chain A coverage; chain B coverage: 156-584 ! SQ P04585 158-698 # chain A coverage; chain B is shorter: 159-595
      2. Human immunodeficiency virus type 2 [TaxId: 11709] [82840] (2) picpic
  4. T7 RNA polymerase [56691] (1)
    1. T7 RNA polymerase [56692]
      multidomain; mostly alpha
      1. Bacteriophage T7 [TaxId: 10760] [56693] (11) picpic
  5. RNA-dependent RNA-polymerase [56694] (11)
    1. Viral RNA polymerase [56695]
      1. Poliovirus type 1, strain Mahoney [TaxId: 12080] [56696] (13) picpic
        SQ P03300 1748-2208
      2. Hepatitis C virus [TaxId: 11103] [56697] (30) picpic
      3. Rabbit hemorrhagic disease virus [TaxId: 11976] [69882] (2) picpic
      4. Norwalk virus [TaxId: 11983] [103400] (3) picpic
      5. Bovine viral diarrhea virus [TaxId: 11099] [103401] (3) picpic
      6. Human rhinovirus 1B, HRV-1B [TaxId: 12129] [111299] (1) picpic
        SQ P12916 1698-2157
      7. Human rhinovirus 16, HRV-16 [TaxId: 31708] [111300] (1) picpic
        SQ Q82122 1694-2153
      8. Human rhinovirus 14, HRV-14 [TaxId: 12131] [111301] (1) picpic
        SQ P03303 1720-2179
      9. Foot-and-mouth disease virus [TaxId: 12110] [111302] (10) picpic
        SQ Q9QCE4 1858-2327
      10. Avian infectious bursal disease virus [TaxId: 10995] [160955] (1) picpic
        SQ Q9Q6Q5 31-804
    2. Reovirus polymerase lambda3 [82841]
      contains additional N-terminal domain (res. 1-380) and C-terminal "bracelet" domain (res. 891-1267)
      1. Reovirus [TaxId: 10891] [82842] (5) picpic
  6. dsRNA phage RNA-dependent RNA-polymerase [64480] (1)
    1. dsRNA phage RNA-dependent RNA-polymerase [64481]
      1. Bacteriophage PHI-6 [TaxId: 10879] [64482] (11) picpic
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MRC site 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