Lineage for Protein: Family B DNA polymerase

  1. Root: SCOPe 2.07
  2. 2568173Class e: Multi-domain proteins (alpha and beta) [56572] (71 folds)
  3. 2571153Fold e.8: DNA/RNA polymerases [56671] (1 superfamily)
    divided into morphological domains including "palm", "thumb" and "fingers"; the catalytic "palm" domain is conserved to all members
  4. 2571154Superfamily e.8.1: DNA/RNA polymerases [56672] (8 families) (S)
    "palm" domain has a ferredoxin-like fold, related to that of an adenylyl cyclase domain
  5. 2571155Family e.8.1.1: DNA polymerase I [56673] (5 proteins)
  6. 2571252Protein Family B DNA polymerase [56680] (7 species)

Species:

  1. 2571253Bacteriophage RB69 [TaxId:12353] [56681] (93 PDB entries)
    1. Domain for 1clq:
    2. Domain for 1ig9:
    3. Domain for 1ih7:
    4. Domains for 1q9x:
      1. 2571331Domain d1q9xa2: 1q9x A:376-903 [96329]
        Other proteins in same PDB: d1q9xa1, d1q9xb1, d1q9xc1, d1q9xd1
        protein/DNA complex; complexed with 3dr, ca, dgp, doc
      2. 2571332Domain d1q9xb2: 1q9x B:376-903 [96331]
        Other proteins in same PDB: d1q9xa1, d1q9xb1, d1q9xc1, d1q9xd1
        protein/DNA complex; complexed with 3dr, ca, dgp, doc
      3. 2571333Domain d1q9xc2: 1q9x C:376-903 [96333]
        Other proteins in same PDB: d1q9xa1, d1q9xb1, d1q9xc1, d1q9xd1
        protein/DNA complex; complexed with 3dr, ca, dgp, doc
      4. 2571334Domain d1q9xd2: 1q9x D:376-903 [96335]
        Other proteins in same PDB: d1q9xa1, d1q9xb1, d1q9xc1, d1q9xd1
        protein/DNA complex; complexed with 3dr, ca, dgp, doc
    5. Domain for 1q9y:
    6. Domain for 1rv2:
    7. Domains for 1waf:
      1. 2571349Domain d1wafa2: 1waf A:376-903 [43008]
        Other proteins in same PDB: d1wafa1, d1wafb1
        complexed with gmp
      2. 2571350Domain d1wafb2: 1waf B:376-903 [43009]
        Other proteins in same PDB: d1wafa1, d1wafb1
        complexed with gmp
    8. Domain for 1waj:
    9. Domain for 2atq:
    10. Domains for 2dtu:
      1. 2571336Domain d2dtua2: 2dtu A:376-903 [230660]
        Other proteins in same PDB: d2dtua1, d2dtub1, d2dtuc1, d2dtud1
        automated match to d1ih7a2
        protein/DNA complex
      2. 2571337Domain d2dtub2: 2dtu B:376-903 [230665]
        Other proteins in same PDB: d2dtua1, d2dtub1, d2dtuc1, d2dtud1
        automated match to d1ih7a2
        protein/DNA complex
      3. 2571338Domain d2dtuc2: 2dtu C:376-899 [230668]
        Other proteins in same PDB: d2dtua1, d2dtub1, d2dtuc1, d2dtud1
        automated match to d1ih7a2
        protein/DNA complex
      4. 2571339Domain d2dtud2: 2dtu D:376-898 [230666]
        Other proteins in same PDB: d2dtua1, d2dtub1, d2dtuc1, d2dtud1
        automated match to d1ih7a2
        protein/DNA complex
    11. Domains for 2dy4:
      1. 2571355Domain d2dy4a2: 2dy4 A:376-902 [131883]
        Other proteins in same PDB: d2dy4a1, d2dy4b1, d2dy4c1, d2dy4d1
        automated match to d1q9xa2
        protein/DNA complex
      2. 2571356Domain d2dy4b2: 2dy4 B:376-902 [131885]
        Other proteins in same PDB: d2dy4a1, d2dy4b1, d2dy4c1, d2dy4d1
        automated match to d1q9xa2
        protein/DNA complex
      3. 2571357Domain d2dy4c2: 2dy4 C:376-900 [131887]
        Other proteins in same PDB: d2dy4a1, d2dy4b1, d2dy4c1, d2dy4d1
        automated match to d1ig9a2
        protein/DNA complex
      4. 2571358Domain d2dy4d2: 2dy4 D:376-897 [131889]
        Other proteins in same PDB: d2dy4a1, d2dy4b1, d2dy4c1, d2dy4d1
        automated match to d1ig9a2
        protein/DNA complex
    12. Domains for 2oyq:
      1. 2571373Domain d2oyqa2: 2oyq A:376-903 [149071]
        Other proteins in same PDB: d2oyqa1, d2oyqb1, d2oyqc1, d2oyqd1
        automated match to d2ozma2
        protein/DNA complex; complexed with mg, n5p
      2. 2571374Domain d2oyqb2: 2oyq B:376-899 [149073]
        Other proteins in same PDB: d2oyqa1, d2oyqb1, d2oyqc1, d2oyqd1
        protein/DNA complex; complexed with mg, n5p
      3. 2571375Domain d2oyqc2: 2oyq C:376-900 [149075]
        Other proteins in same PDB: d2oyqa1, d2oyqb1, d2oyqc1, d2oyqd1
        automated match to d1ig9a2
        protein/DNA complex; complexed with mg, n5p
      4. 2571376Domain d2oyqd2: 2oyq D:376-898 [149077]
        Other proteins in same PDB: d2oyqa1, d2oyqb1, d2oyqc1, d2oyqd1
        automated match to d1ig9a2
        protein/DNA complex; complexed with mg, n5p
    13. Domain for 2ozm:
    14. Domain for 2ozs:
    15. Domains for 2p5g:
      1. 2571364Domain d2p5ga2: 2p5g A:376-903 [149241]
        Other proteins in same PDB: d2p5ga1, d2p5gb1, d2p5gc1, d2p5gd1
        automated match to d1q9xa2
        protein/DNA complex
      2. 2571365Domain d2p5gb2: 2p5g B:376-899 [149243]
        Other proteins in same PDB: d2p5ga1, d2p5gb1, d2p5gc1, d2p5gd1
        protein/DNA complex
      3. 2571366Domain d2p5gc2: 2p5g C:376-898 [149245]
        Other proteins in same PDB: d2p5ga1, d2p5gb1, d2p5gc1, d2p5gd1
        automated match to d1ig9a2
        protein/DNA complex
      4. 2571367Domain d2p5gd2: 2p5g D:376-899 [149247]
        Other proteins in same PDB: d2p5ga1, d2p5gb1, d2p5gc1, d2p5gd1
        automated match to d1ig9a2
        protein/DNA complex
    16. Domains for 2p5o:
      1. 2571360Domain d2p5oa2: 2p5o A:376-902 [139499]
        Other proteins in same PDB: d2p5oa1, d2p5ob1, d2p5oc1, d2p5od1
        automatically matched to d1clqa2
        protein/DNA complex
      2. 2571361Domain d2p5ob2: 2p5o B:376-901 [139501]
        Other proteins in same PDB: d2p5oa1, d2p5ob1, d2p5oc1, d2p5od1
        automatically matched to d1clqa2
        protein/DNA complex
      3. 2571362Domain d2p5oc2: 2p5o C:376-898 [139503]
        Other proteins in same PDB: d2p5oa1, d2p5ob1, d2p5oc1, d2p5od1
        automatically matched to d1clqa2
        protein/DNA complex
      4. 2571363Domain d2p5od2: 2p5o D:376-896 [139505]
        Other proteins in same PDB: d2p5oa1, d2p5ob1, d2p5oc1, d2p5od1
        automatically matched to d1clqa2
        protein/DNA complex
    17. Domain for 3cfo:
    18. Domain for 3cq8:
    19. Domains for 3l8b:
      1. 2571298Domain d3l8ba2: 3l8b A:376-903 [232822]
        Other proteins in same PDB: d3l8ba1, d3l8bb1
        automated match to d1ih7a2
        protein/DNA complex; complexed with so4
      2. 2571299Domain d3l8bb2: 3l8b B:376-903 [232823]
        Other proteins in same PDB: d3l8ba1, d3l8bb1
        automated match to d1ih7a2
        protein/DNA complex; complexed with so4
    20. Domain for 3lds:
    21. Domain for 3lzi:
    22. Domain for 3lzj:
    23. Domain for 3nae:
    24. Domain for 3nci:
    25. Domain for 3ndk:
    26. Domain for 3ne6:
    27. Domain for 3ngi:
    28. Domain for 3nhg:
    29. Domain for 3qes:
    30. Domain for 3qet:
    31. Domains for 3rma:
      1. 2571369Domain d3rmaa2: 3rma A:376-903 [249141]
        Other proteins in same PDB: d3rmaa1, d3rmab1, d3rmac1, d3rmad1
        automated match to d3l8bb2
        protein/DNA complex
      2. 2571370Domain d3rmab2: 3rma B:376-903 [249143]
        Other proteins in same PDB: d3rmaa1, d3rmab1, d3rmac1, d3rmad1
        automated match to d3l8bb2
        protein/DNA complex
      3. 2571371Domain d3rmac2: 3rma C:376-899 [249145]
        Other proteins in same PDB: d3rmaa1, d3rmab1, d3rmac1, d3rmad1
        automated match to d3l8bb2
        protein/DNA complex
      4. 2571372Domain d3rmad2: 3rma D:376-898 [249147]
        Other proteins in same PDB: d3rmaa1, d3rmab1, d3rmac1, d3rmad1
        automated match to d3l8bb2
        protein/DNA complex
    32. Domains for 3rmb:
      1. 2571351Domain d3rmba2: 3rmb A:376-903 [249149]
        Other proteins in same PDB: d3rmba1, d3rmbb1, d3rmbc1, d3rmbd1
        automated match to d3l8bb2
        protein/DNA complex; complexed with so4
      2. 2571352Domain d3rmbb2: 3rmb B:376-903 [249151]
        Other proteins in same PDB: d3rmba1, d3rmbb1, d3rmbc1, d3rmbd1
        automated match to d3l8bb2
        protein/DNA complex; complexed with so4
      3. 2571353Domain d3rmbc2: 3rmb C:376-900 [249153]
        Other proteins in same PDB: d3rmba1, d3rmbb1, d3rmbc1, d3rmbd1
        automated match to d3l8bb2
        protein/DNA complex; complexed with so4
      4. 2571354Domain d3rmbd2: 3rmb D:376-897 [249155]
        Other proteins in same PDB: d3rmba1, d3rmbb1, d3rmbc1, d3rmbd1
        automated match to d3l8bb2
        protein/DNA complex; complexed with so4
    33. Domains for 3rmc:
      1. 2571381Domain d3rmca2: 3rmc A:376-902 [249157]
        Other proteins in same PDB: d3rmca1, d3rmcb1, d3rmcc1, d3rmcd1
        automated match to d3ncia2
        protein/DNA complex
      2. 2571382Domain d3rmcb2: 3rmc B:376-902 [249159]
        Other proteins in same PDB: d3rmca1, d3rmcb1, d3rmcc1, d3rmcd1
        automated match to d3ncia2
        protein/DNA complex
      3. 2571383Domain d3rmcc2: 3rmc C:376-901 [249161]
        Other proteins in same PDB: d3rmca1, d3rmcb1, d3rmcc1, d3rmcd1
        automated match to d3ncia2
        protein/DNA complex
      4. 2571384Domain d3rmcd2: 3rmc D:376-897 [249163]
        Other proteins in same PDB: d3rmca1, d3rmcb1, d3rmcc1, d3rmcd1
        automated match to d3ncia2
        protein/DNA complex
    34. Domains for 3rmd:
      1. 2571377Domain d3rmda2: 3rmd A:376-902 [249165]
        Other proteins in same PDB: d3rmda1, d3rmdb1, d3rmdc1, d3rmdd1
        automated match to d3l8bb2
        protein/DNA complex; complexed with dtp
      2. 2571378Domain d3rmdb2: 3rmd B:376-902 [249167]
        Other proteins in same PDB: d3rmda1, d3rmdb1, d3rmdc1, d3rmdd1
        automated match to d3l8bb2
        protein/DNA complex; complexed with dtp
      3. 2571379Domain d3rmdc2: 3rmd C:376-901 [249169]
        Other proteins in same PDB: d3rmda1, d3rmdb1, d3rmdc1, d3rmdd1
        automated match to d3l8bb2
        protein/DNA complex; complexed with dtp
      4. 2571380Domain d3rmdd2: 3rmd D:376-897 [249171]
        Other proteins in same PDB: d3rmda1, d3rmdb1, d3rmdc1, d3rmdd1
        automated match to d3l8bb2
        protein/DNA complex; complexed with dtp
    35. Domain for 3s9h:
    36. Domain for 3scx:
    37. Domain for 3si6:
    38. Domain for 3sjj:
    39. Domain for 3snn:
    40. Domain for 3spy:
    41. Domain for 3spz:
    42. Domain for 3sq0:
    43. Domain for 3sq1:
    44. Domain for 3sq2:
    45. Domain for 3sq4:
    46. Domain for 3sun:
    47. Domain for 3suo:
    48. Domain for 3sup:
    49. Domain for 3suq:
    50. Domains for 3tae:
      1. 2571325Domain d3taea2: 3tae A:376-903 [249842]
        Other proteins in same PDB: d3taea1, d3taeb1, d3taec1, d3taed1
        automated match to d3l8bb2
        protein/DNA complex; complexed with so4
      2. 2571326Domain d3taeb2: 3tae B:376-901 [249844]
        Other proteins in same PDB: d3taea1, d3taeb1, d3taec1, d3taed1
        automated match to d3l8bb2
        protein/DNA complex; complexed with so4
      3. 2571327Domain d3taec2: 3tae C:376-903 [249846]
        Other proteins in same PDB: d3taea1, d3taeb1, d3taec1, d3taed1
        automated match to d3l8bb2
        protein/DNA complex; complexed with so4
      4. 2571328Domain d3taed2: 3tae D:376-898 [249848]
        Other proteins in same PDB: d3taea1, d3taeb1, d3taec1, d3taed1
        automated match to d3l8bb2
        protein/DNA complex; complexed with so4
    51. Domains for 3tag:
      1. 2571342Domain d3taga2: 3tag A:376-903 [249850]
        Other proteins in same PDB: d3taga1, d3taga3, d3tagb1, d3tagc1, d3tagd1
        automated match to d3l8bb2
        protein/DNA complex; complexed with so4
      2. 2571343Domain d3tagb2: 3tag B:376-901 [249852]
        Other proteins in same PDB: d3taga1, d3taga3, d3tagb1, d3tagc1, d3tagd1
        automated match to d3l8bb2
        protein/DNA complex; complexed with so4
      3. 2571344Domain d3tagc2: 3tag C:376-903 [249854]
        Other proteins in same PDB: d3taga1, d3taga3, d3tagb1, d3tagc1, d3tagd1
        automated match to d3l8bb2
        protein/DNA complex; complexed with so4
      4. 2571345Domain d3tagd2: 3tag D:376-898 [249856]
        Other proteins in same PDB: d3taga1, d3taga3, d3tagb1, d3tagc1, d3tagd1
        automated match to d3l8bb2
        protein/DNA complex; complexed with so4
    52. Domain for 3uiq:
    53. Domain for 4dtj:
    54. Domain for 4dtm:
    55. Domain for 4dtn:
    56. Domain for 4dto:
    57. Domain for 4dtp:
    58. Domain for 4dtr:
    59. Domain for 4dts:
    60. Domain for 4dtu:
    61. Domain for 4dtx:
    62. Domain for 4du1:
    63. Domain for 4du3:
    64. Domain for 4du4:
    65. Domain for 4e3s:
    66. Domain for 4fj5:
    67. Domain for 4fj7:
    68. Domain for 4fj8:
    69. Domain for 4fj9:
    70. Domain for 4fjg:
    71. Domain for 4fjh:
    72. Domain for 4fji:
    73. Domain for 4fjj:
    74. Domain for 4fjk:
    75. Domain for 4fjl:
    76. Domain for 4fjm:
    77. Domain for 4fjn:
    78. Domain for 4fjx:
    79. Domain for 4fk0:
    80. Domain for 4fk2:
    81. Domain for 4fk4:
    82. Domain for 4i9l:
    83. Domain for 4j2a:
    84. Domain for 4j2b:
    85. Domain for 4j2e:
    86. Domains for 4khn:
      1. 2571323Domain d4khna2: 4khn A:376-901 [235166]
        Other proteins in same PDB: d4khna1, d4khnb1
        automated match to d4khnb2
        protein/DNA complex; complexed with ca, gol, na, so4, xg4; mutant
      2. 2571324Domain d4khnb2: 4khn B:376-901 [228219]
        Other proteins in same PDB: d4khna1, d4khnb1
        automated match to d1ih7a2
        protein/DNA complex; complexed with ca, gol, na, so4, xg4; mutant
    87. Domain for 4khq:
    88. Domain for 4khs:
    89. Domain for 4khu:
    90. Domain for 4khw:
    91. Domain for 4khy:
    92. Domain for 4ki4:
    93. Domain for 4ki6:
  2. 2571386Desulfurococcus tok [TaxId:108142] [56684] (2 PDB entries)
    1. Domain for 1d5a:
    2. Domain for 1qqc:
  3. 2571389Escherichia coli [TaxId:562] [103399] (1 PDB entry)
  4. 2571391Pyrococcus kodakaraensis [TaxId:311400] [56685] (2 PDB entries)
    Uniprot P56689 1-758 # 93% sequence identity; Thermococcus kodakarensis KOD1 TaxID: 69014
    1. Domain for 1wn7:
    2. Domain for 1wns:
  5. 2571394Sulfolobus solfataricus [TaxId:2287] [118192] (1 PDB entry)
    Uniprot P26811 40-864
  6. 2571396Thermococcus gorgonarius [TaxId:71997] [56682] (1 PDB entry)
  7. 2571398Thermococcus sp., 9on-7 [TaxId:35749] [56683] (1 PDB entry)

More info for Protein Family B DNA polymerase from e.8.1.1: DNA polymerase I

Timeline for Protein Family B DNA polymerase from e.8.1.1: DNA polymerase I: