Lineage for Species: Bacteriophage RB69 [TaxId: 12353]

  1. Root: SCOPe 2.06
  2. 2078559Class c: Alpha and beta proteins (a/b) [51349] (148 folds)
  3. 2122050Fold c.55: Ribonuclease H-like motif [53066] (7 superfamilies)
    3 layers: a/b/a; mixed beta-sheet of 5 strands, order 32145; strand 2 is antiparallel to the rest
  4. 2123751Superfamily c.55.3: Ribonuclease H-like [53098] (15 families) (S)
    consists of one domain of this fold
  5. 2124334Family c.55.3.5: DnaQ-like 3'-5' exonuclease [53118] (17 protein domains)
    contains Pfam PF00929
  6. 2124346Protein Exonuclease domain of family B DNA polymerases [53125] (8 species)
    elaborated with additional structures and the N-terminal subdomain
  7. 2124347Species Bacteriophage RB69 [TaxId:12353] [53127] (92 PDB entries)
    additional N-terminal subdomain contains rudimental OB-fold and rudimental ferredoxin-like fold

PDB entries in Species: Bacteriophage RB69 [TaxId: 12353]:

  1. Domain(s) for 1clq:
  2. Domain(s) for 1ig9:
  3. Domain(s) for 1ih7:
  4. Domain(s) for 1q9x:
    1. 2124439Domain d1q9xa1: 1q9x A:1-375 [96328]
      Other proteins in same PDB: d1q9xa2, d1q9xb2, d1q9xc2, d1q9xd2
      protein/DNA complex; complexed with 3dr, ca, dgp, doc
    2. 2124440Domain d1q9xb1: 1q9x B:1-375 [96330]
      Other proteins in same PDB: d1q9xa2, d1q9xb2, d1q9xc2, d1q9xd2
      protein/DNA complex; complexed with 3dr, ca, dgp, doc
    3. 2124441Domain d1q9xc1: 1q9x C:1-375 [96332]
      Other proteins in same PDB: d1q9xa2, d1q9xb2, d1q9xc2, d1q9xd2
      protein/DNA complex; complexed with 3dr, ca, dgp, doc
    4. 2124442Domain d1q9xd1: 1q9x D:1-375 [96334]
      Other proteins in same PDB: d1q9xa2, d1q9xb2, d1q9xc2, d1q9xd2
      protein/DNA complex; complexed with 3dr, ca, dgp, doc
  5. Domain(s) for 1q9y:
  6. Domain(s) for 1waf:
    1. 2124472Domain d1wafa1: 1waf A:1-375 [33719]
      Other proteins in same PDB: d1wafa2, d1wafb2
      complexed with gmp
    2. 2124473Domain d1wafb1: 1waf B:1-375 [33720]
      Other proteins in same PDB: d1wafa2, d1wafb2
      complexed with gmp
  7. Domain(s) for 1waj:
  8. Domain(s) for 2atq:
  9. Domain(s) for 2dtu:
    1. 2124412Domain d2dtua1: 2dtu A:1-375 [230656]
      Other proteins in same PDB: d2dtua2, d2dtub2, d2dtuc2, d2dtud2
      automated match to d1ih7a1
      protein/DNA complex
    2. 2124413Domain d2dtub1: 2dtu B:1-375 [230654]
      Other proteins in same PDB: d2dtua2, d2dtub2, d2dtuc2, d2dtud2
      automated match to d1ih7a1
      protein/DNA complex
    3. 2124414Domain d2dtuc1: 2dtu C:1-375 [230655]
      Other proteins in same PDB: d2dtua2, d2dtub2, d2dtuc2, d2dtud2
      automated match to d1ih7a1
      protein/DNA complex
    4. 2124415Domain d2dtud1: 2dtu D:1-375 [230657]
      Other proteins in same PDB: d2dtua2, d2dtub2, d2dtuc2, d2dtud2
      automated match to d1ih7a1
      protein/DNA complex
  10. Domain(s) for 2dy4:
    1. 2124432Domain d2dy4a1: 2dy4 A:1-375 [131882]
      Other proteins in same PDB: d2dy4a2, d2dy4b2, d2dy4c2, d2dy4d2
      automated match to d1q9xa1
      protein/DNA complex
    2. 2124433Domain d2dy4b1: 2dy4 B:1-375 [131884]
      Other proteins in same PDB: d2dy4a2, d2dy4b2, d2dy4c2, d2dy4d2
      automated match to d1q9xa1
      protein/DNA complex
    3. 2124434Domain d2dy4c1: 2dy4 C:1-375 [131886]
      Other proteins in same PDB: d2dy4a2, d2dy4b2, d2dy4c2, d2dy4d2
      automated match to d1ig9a1
      protein/DNA complex
    4. 2124435Domain d2dy4d1: 2dy4 D:1-375 [131888]
      Other proteins in same PDB: d2dy4a2, d2dy4b2, d2dy4c2, d2dy4d2
      automated match to d1ig9a1
      protein/DNA complex
  11. Domain(s) for 2oyq:
    1. 2124458Domain d2oyqa1: 2oyq A:1-375 [149070]
      Other proteins in same PDB: d2oyqa2, d2oyqb2, d2oyqc2, d2oyqd2
      automated match to d2ozma1
      protein/DNA complex; complexed with mg, n5p
    2. 2124459Domain d2oyqb1: 2oyq B:1-375 [149072]
      Other proteins in same PDB: d2oyqa2, d2oyqb2, d2oyqc2, d2oyqd2
      automated match to d1ig9a1
      protein/DNA complex; complexed with mg, n5p
    3. 2124460Domain d2oyqc1: 2oyq C:1-375 [149074]
      Other proteins in same PDB: d2oyqa2, d2oyqb2, d2oyqc2, d2oyqd2
      automated match to d1ig9a1
      protein/DNA complex; complexed with mg, n5p
    4. 2124461Domain d2oyqd1: 2oyq D:2-375 [149076]
      Other proteins in same PDB: d2oyqa2, d2oyqb2, d2oyqc2, d2oyqd2
      automated match to d1ig9a1
      protein/DNA complex; complexed with mg, n5p
  12. Domain(s) for 2ozm:
  13. Domain(s) for 2ozs:
  14. Domain(s) for 2p5g:
    1. 2124454Domain d2p5ga1: 2p5g A:1-375 [149240]
      Other proteins in same PDB: d2p5ga2, d2p5gb2, d2p5gc2, d2p5gd2
      automated match to d1q9xa1
      protein/DNA complex
    2. 2124455Domain d2p5gb1: 2p5g B:1-375 [149242]
      Other proteins in same PDB: d2p5ga2, d2p5gb2, d2p5gc2, d2p5gd2
      automated match to d1ig9a1
      protein/DNA complex
    3. 2124456Domain d2p5gc1: 2p5g C:1-375 [149244]
      Other proteins in same PDB: d2p5ga2, d2p5gb2, d2p5gc2, d2p5gd2
      automated match to d1ig9a1
      protein/DNA complex
    4. 2124457Domain d2p5gd1: 2p5g D:2-375 [149246]
      Other proteins in same PDB: d2p5ga2, d2p5gb2, d2p5gc2, d2p5gd2
      automated match to d1ig9a1
      protein/DNA complex
  15. Domain(s) for 2p5o:
    1. 2124474Domain d2p5oa1: 2p5o A:1-375 [139498]
      Other proteins in same PDB: d2p5oa2, d2p5ob2, d2p5oc2, d2p5od2
      automatically matched to d1clqa1
      protein/DNA complex
    2. 2124475Domain d2p5ob1: 2p5o B:1-375 [139500]
      Other proteins in same PDB: d2p5oa2, d2p5ob2, d2p5oc2, d2p5od2
      automatically matched to d1clqa1
      protein/DNA complex
    3. 2124476Domain d2p5oc1: 2p5o C:1-375 [139502]
      Other proteins in same PDB: d2p5oa2, d2p5ob2, d2p5oc2, d2p5od2
      automatically matched to d1clqa1
      protein/DNA complex
    4. 2124477Domain d2p5od1: 2p5o D:1-375 [139504]
      Other proteins in same PDB: d2p5oa2, d2p5ob2, d2p5oc2, d2p5od2
      automatically matched to d1clqa1
      protein/DNA complex
  16. Domain(s) for 3cfo:
  17. Domain(s) for 3cq8:
  18. Domain(s) for 3l8b:
    1. 2124392Domain d3l8ba1: 3l8b A:1-375 [232820]
      Other proteins in same PDB: d3l8ba2, d3l8bb2
      automated match to d1ih7a1
      protein/DNA complex; complexed with so4
    2. 2124393Domain d3l8bb1: 3l8b B:1-375 [232821]
      Other proteins in same PDB: d3l8ba2, d3l8bb2
      automated match to d1ih7a1
      protein/DNA complex; complexed with so4
  19. Domain(s) for 3lds:
  20. Domain(s) for 3lzi:
  21. Domain(s) for 3lzj:
  22. Domain(s) for 3nae:
  23. Domain(s) for 3nci:
  24. Domain(s) for 3ndk:
  25. Domain(s) for 3ne6:
  26. Domain(s) for 3ngi:
  27. Domain(s) for 3nhg:
  28. Domain(s) for 3qes:
  29. Domain(s) for 3qet:
  30. Domain(s) for 3rma:
    1. 2124443Domain d3rmaa1: 3rma A:1-375 [249140]
      Other proteins in same PDB: d3rmaa2, d3rmab2, d3rmac2, d3rmad2
      automated match to d3l8bb1
      protein/DNA complex
    2. 2124444Domain d3rmab1: 3rma B:1-375 [249142]
      Other proteins in same PDB: d3rmaa2, d3rmab2, d3rmac2, d3rmad2
      automated match to d3l8bb1
      protein/DNA complex
    3. 2124445Domain d3rmac1: 3rma C:1-375 [249144]
      Other proteins in same PDB: d3rmaa2, d3rmab2, d3rmac2, d3rmad2
      automated match to d3l8bb1
      protein/DNA complex
    4. 2124446Domain d3rmad1: 3rma D:1-375 [249146]
      Other proteins in same PDB: d3rmaa2, d3rmab2, d3rmac2, d3rmad2
      automated match to d3l8bb1
      protein/DNA complex
  31. Domain(s) for 3rmb:
    1. 2124423Domain d3rmba1: 3rmb A:1-375 [249148]
      Other proteins in same PDB: d3rmba2, d3rmbb2, d3rmbc2, d3rmbd2
      automated match to d3l8bb1
      protein/DNA complex; complexed with so4
    2. 2124424Domain d3rmbb1: 3rmb B:1-375 [249150]
      Other proteins in same PDB: d3rmba2, d3rmbb2, d3rmbc2, d3rmbd2
      automated match to d3l8bb1
      protein/DNA complex; complexed with so4
    3. 2124425Domain d3rmbc1: 3rmb C:1-375 [249152]
      Other proteins in same PDB: d3rmba2, d3rmbb2, d3rmbc2, d3rmbd2
      automated match to d3l8bb1
      protein/DNA complex; complexed with so4
    4. 2124426Domain d3rmbd1: 3rmb D:1-375 [249154]
      Other proteins in same PDB: d3rmba2, d3rmbb2, d3rmbc2, d3rmbd2
      automated match to d3l8bb1
      protein/DNA complex; complexed with so4
  32. Domain(s) for 3rmc:
    1. 2124466Domain d3rmca1: 3rmc A:1-375 [249156]
      Other proteins in same PDB: d3rmca2, d3rmcb2, d3rmcc2, d3rmcd2
      automated match to d3uiqa1
      protein/DNA complex
    2. 2124467Domain d3rmcb1: 3rmc B:1-375 [249158]
      Other proteins in same PDB: d3rmca2, d3rmcb2, d3rmcc2, d3rmcd2
      automated match to d3uiqa1
      protein/DNA complex
    3. 2124468Domain d3rmcc1: 3rmc C:1-375 [249160]
      Other proteins in same PDB: d3rmca2, d3rmcb2, d3rmcc2, d3rmcd2
      automated match to d3uiqa1
      protein/DNA complex
    4. 2124469Domain d3rmcd1: 3rmc D:1-375 [249162]
      Other proteins in same PDB: d3rmca2, d3rmcb2, d3rmcc2, d3rmcd2
      automated match to d3uiqa1
      protein/DNA complex
  33. Domain(s) for 3rmd:
    1. 2124448Domain d3rmda1: 3rmd A:1-375 [249164]
      Other proteins in same PDB: d3rmda2, d3rmdb2, d3rmdc2, d3rmdd2
      automated match to d3l8bb1
      protein/DNA complex; complexed with dtp
    2. 2124449Domain d3rmdb1: 3rmd B:1-375 [249166]
      Other proteins in same PDB: d3rmda2, d3rmdb2, d3rmdc2, d3rmdd2
      automated match to d3l8bb1
      protein/DNA complex; complexed with dtp
    3. 2124450Domain d3rmdc1: 3rmd C:1-375 [249168]
      Other proteins in same PDB: d3rmda2, d3rmdb2, d3rmdc2, d3rmdd2
      automated match to d3l8bb1
      protein/DNA complex; complexed with dtp
    4. 2124451Domain d3rmdd1: 3rmd D:1-375 [249170]
      Other proteins in same PDB: d3rmda2, d3rmdb2, d3rmdc2, d3rmdd2
      automated match to d3l8bb1
      protein/DNA complex; complexed with dtp
  34. Domain(s) for 3s9h:
  35. Domain(s) for 3scx:
  36. Domain(s) for 3si6:
  37. Domain(s) for 3sjj:
  38. Domain(s) for 3snn:
  39. Domain(s) for 3spy:
  40. Domain(s) for 3spz:
  41. Domain(s) for 3sq0:
  42. Domain(s) for 3sq1:
  43. Domain(s) for 3sq2:
  44. Domain(s) for 3sq4:
  45. Domain(s) for 3sun:
  46. Domain(s) for 3suo:
  47. Domain(s) for 3sup:
  48. Domain(s) for 3suq:
  49. Domain(s) for 3tae:
    1. 2124427Domain d3taea1: 3tae A:1-375 [249841]
      Other proteins in same PDB: d3taea2, d3taeb2, d3taec2, d3taed2
      automated match to d3l8bb1
      protein/DNA complex; complexed with so4
    2. 2124428Domain d3taeb1: 3tae B:1-375 [249843]
      Other proteins in same PDB: d3taea2, d3taeb2, d3taec2, d3taed2
      automated match to d3l8bb1
      protein/DNA complex; complexed with so4
    3. 2124429Domain d3taec1: 3tae C:1-375 [249845]
      Other proteins in same PDB: d3taea2, d3taeb2, d3taec2, d3taed2
      automated match to d3l8bb1
      protein/DNA complex; complexed with so4
    4. 2124430Domain d3taed1: 3tae D:1-375 [249847]
      Other proteins in same PDB: d3taea2, d3taeb2, d3taec2, d3taed2
      automated match to d3l8bb1
      protein/DNA complex; complexed with so4
  50. Domain(s) for 3tag:
    1. 2124462Domain d3taga1: 3tag A:1-375 [249849]
      Other proteins in same PDB: d3taga2, d3taga3, d3tagb2, d3tagc2, d3tagd2
      automated match to d3l8bb1
      protein/DNA complex; complexed with so4
    2. 2124463Domain d3tagb1: 3tag B:1-375 [249851]
      Other proteins in same PDB: d3taga2, d3taga3, d3tagb2, d3tagc2, d3tagd2
      automated match to d3l8bb1
      protein/DNA complex; complexed with so4
    3. 2124464Domain d3tagc1: 3tag C:1-375 [249853]
      Other proteins in same PDB: d3taga2, d3taga3, d3tagb2, d3tagc2, d3tagd2
      automated match to d3l8bb1
      protein/DNA complex; complexed with so4
    4. 2124465Domain d3tagd1: 3tag D:1-375 [249855]
      Other proteins in same PDB: d3taga2, d3taga3, d3tagb2, d3tagc2, d3tagd2
      automated match to d3l8bb1
      protein/DNA complex; complexed with so4
  51. Domain(s) for 3uiq:
  52. Domain(s) for 4dtj:
  53. Domain(s) for 4dtm:
  54. Domain(s) for 4dtn:
  55. Domain(s) for 4dto:
  56. Domain(s) for 4dtp:
  57. Domain(s) for 4dtr:
  58. Domain(s) for 4dts:
  59. Domain(s) for 4dtu:
  60. Domain(s) for 4dtx:
  61. Domain(s) for 4du1:
  62. Domain(s) for 4du3:
  63. Domain(s) for 4du4:
  64. Domain(s) for 4e3s:
  65. Domain(s) for 4fj5:
  66. Domain(s) for 4fj7:
  67. Domain(s) for 4fj8:
  68. Domain(s) for 4fj9:
  69. Domain(s) for 4fjg:
  70. Domain(s) for 4fjh:
  71. Domain(s) for 4fji:
  72. Domain(s) for 4fjj:
  73. Domain(s) for 4fjk:
  74. Domain(s) for 4fjl:
  75. Domain(s) for 4fjm:
  76. Domain(s) for 4fjn:
  77. Domain(s) for 4fjx:
  78. Domain(s) for 4fk0:
  79. Domain(s) for 4fk2:
  80. Domain(s) for 4fk4:
  81. Domain(s) for 4i9l:
  82. Domain(s) for 4j2a:
  83. Domain(s) for 4j2b:
  84. Domain(s) for 4j2e:
  85. Domain(s) for 4khn:
    1. 2124421Domain d4khna1: 4khn A:1-375 [235165]
      Other proteins in same PDB: d4khna2, d4khnb2
      automated match to d4khnb1
      protein/DNA complex; complexed with ca, gol, na, so4, xg4; mutant
    2. 2124422Domain d4khnb1: 4khn B:1-375 [228218]
      Other proteins in same PDB: d4khna2, d4khnb2
      automated match to d1ih7a1
      protein/DNA complex; complexed with ca, gol, na, so4, xg4; mutant
  86. Domain(s) for 4khq:
  87. Domain(s) for 4khs:
  88. Domain(s) for 4khu:
  89. Domain(s) for 4khw:
  90. Domain(s) for 4khy:
  91. Domain(s) for 4ki4:
  92. Domain(s) for 4ki6:

More info for Species Bacteriophage RB69 [TaxId:12353] from c.55.3.5 Exonuclease domain of family B DNA polymerases

Timeline for Species Bacteriophage RB69 [TaxId:12353] from c.55.3.5 Exonuclease domain of family B DNA polymerases: