Structural Classification of Proteins

Fold: DNA/RNA polymerases

: divided into morphological domains including "palm", "thumb" and "fingers"; the catalytic "palm" domain is conserved to all members

Lineage:

Root: scop
Class: Multi-domain proteins (alpha and beta) [56572]
Folds consisting of two or more domains belonging to different classes
Fold: DNA/RNA polymerases [56671]
divided into morphological domains including "palm", "thumb" and "fingers"; the catalytic "palm" domain is conserved to all members

Superfamilies:

DNA/RNA polymerases [56672] (6)
"palm" domain has a ferredoxin-like fold, related to that of an adenylyl cyclase domain
uperfamily
1. DNA polymerase I [56673] (12)
  1. DNA polymerase I (Klenow fragment) [56674]
    1. Escherichia coli [TaxId: 562] [56675] (14)
    2. Thermus aquaticus [TaxId: 271] [56676] (13)
    3. Bacillus stearothermophilus, newly identified strain as yet unnamed [TaxId: 1422] [56677] (45)
      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)
      SQ P00581
  3. Family B DNA polymerase [56680]
    1. Escherichia coli [TaxId: 562] [103399] (1)
    2. Bacteriophage RB69 [TaxId: 12353] [56681] (27)
    3. Archaeon Thermococcus gorgonarius [TaxId: 71997] [56682] (3)
    4. Archaeon Thermococcus sp., 9on-7 [TaxId: 35749] [56683] (1)
    5. Archaeon Desulfurococcus tok [TaxId: 108142] [56684] (2)
    6. Archaeon Pyrococcus kodakaraensis [TaxId: 311400] [56685] (2)
      SQ P56689 1-758 # 93% sequence identity; Thermococcus kodakarensis KOD1 TaxID: 69014
    7. Sulfolobus solfataricus [TaxId: 2287] [118192] (1)
      SQ P26811 40-864
  4. phi29 DNA polymerase [118193]
    1. Bacteriophage phi-29 [TaxId: 10756] [118194] (18)
      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)
    2. Archaeon Sulfolobus solfataricus [TaxId: 2287] [100891] (3)
    3. Sulfolobus acidocaldarius Brock et al. 1972 (Sulfolobus acidocaldarius) [TaxId: 2285] [160954] (3)
  2. DNA polymerase eta [100892]
    1. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [100893] (5)
  3. DNA polymerase iota [111295]
    1. Human (Homo sapiens) [TaxId: 9606] [111296] (8)
      SQ Q9UNA4
  4. DNA polymerase kappa [111297]
    1. Human (Homo sapiens) [TaxId: 9606] [111298] (1)
      SQ Q9UBT6 71-517
3. Reverse transcriptase [56686] (3)
  1. MMLV reverse transcriptase [56687]
    1. Moloney murine leukemia virus, MoMLV [TaxId: 11801] [56688] (22)
      SQ P03355 RE 144-594
  2. HIV-1 reverse transcriptase [56689]
    1. Human immunodeficiency virus type 1 [TaxId: 11676] [56690] (191)
      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)
4. T7 RNA polymerase [56691] (1)
  1. T7 RNA polymerase [56692]
    multidomain; mostly alpha
    1. Bacteriophage T7 [TaxId: 10760] [56693] (11)
5. RNA-dependent RNA-polymerase [56694] (11)
  1. Viral RNA polymerase [56695]
    1. Poliovirus type 1, strain Mahoney [TaxId: 12080] [56696] (13)
      SQ P03300 1748-2208
    2. Hepatitis C virus [TaxId: 11103] [56697] (30)
    3. Rabbit hemorrhagic disease virus [TaxId: 11976] [69882] (2)
    4. Norwalk virus [TaxId: 11983] [103400] (3)
    5. Bovine viral diarrhea virus [TaxId: 11099] [103401] (3)
    6. Human rhinovirus 1B, HRV-1B [TaxId: 12129] [111299] (1)
      SQ P12916 1698-2157
    7. Human rhinovirus 16, HRV-16 [TaxId: 31708] [111300] (1)
      SQ Q82122 1694-2153
    8. Human rhinovirus 14, HRV-14 [TaxId: 12131] [111301] (1)
      SQ P03303 1720-2179
    9. Foot-and-mouth disease virus [TaxId: 12110] [111302] (10)
      SQ Q9QCE4 1858-2327
    10. Avian infectious bursal disease virus [TaxId: 10995] [160955] (1)
      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)
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)