Structural Classification of Proteins
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Family: DNA polymerase I

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
  5. Family: DNA polymerase I [56673]

Protein Domains:

  1. DNA polymerase I (Klenow fragment) [56674]
    1. Escherichia coli [TaxId: 562] [56675] (14)
      1. 2kfz picpicxref
        protein/DNA complex; complexed with mg, s, zn
        1. region a:519-928 [42976] picpiclink
      2. 2kfn picpicxref
        protein/DNA complex; complexed with mg, mn, s, zn
        1. region a:519-928 [42975] picpiclink
      3. 1kfs picpicxref
        protein/DNA complex; complexed with mg, zn; mutant
        1. region a:519-928 [42974] picpiclink
      4. 1d8y picpicxref
        1. region a:519-928 [42977] picpiclink
      5. 1d9d picpicxref
        1. region a:519-928 [42981] picpiclink
      6. 1krp picpicxref
        protein/DNA complex; complexed with pst, zn; mutant
        1. region a:519-928 [42978] picpiclink
      7. 1ksp picpicxref
        protein/DNA complex; complexed with pst, zn; mutant
        1. region a:519-928 [42980] picpiclink
      8. 1qsl picpicxref
        complexed with eu; mutant
        1. region a:519-928 [42979] picpiclink
      9. 2kzz picpicxref
        protein/DNA complex; complexed with zn
        1. region a:519-928 [42982] picpiclink
      10. 2kzm picpicxref
        protein/DNA complex; complexed with mn, zn
        1. region a:519-928 [42983] picpiclink
      11. 1d9f picpicxref
        1. region a:519-928 [42984] picpiclink
      12. 1dpi picpicxref
        complexed with zn
        1. region a:519-928 [42985] picpiclink
      13. 1kln picpicxref
        protein/DNA complex; complexed with zn; mutant
        1. region a:519-928 [42986] picpiclink
      14. 1kfd picpicxref
        complexed with ctp
        1. region a:519-928 [42987] picpiclink
    2. Thermus aquaticus [TaxId: 271] [56676] (13)
      1. 1qtm picpicxref
        protein/DNA complex; complexed with 2dt, mg, ttp
        1. region a:423-831 [42988] picpiclink
      2. 1qsy picpicxref
        protein/DNA complex; complexed with 2da, dad, mg; mutant
        1. region a:423-831 [42993] picpiclink
      3. 1cmw picpicxrefxrefxref
        1. region a:423-832 [42994] picpiclink
      4. 1qss picpicxref
        protein/DNA complex; complexed with ddg, dg3, mg; mutant
        1. region a:423-831 [42990] picpiclink
      5. 1jxe picpicxref
        1. region a:423-832 [42998] picpiclink
      6. 3ktq picpicxref
        complexed with ctp, ddc, mg
        1. region a:423-831 [42989] picpiclink
      7. 1bgx picpicxrefxrefxrefxrefxrefxrefxref
        1. region t:423-832 [42992] picpiclink
      8. 1taq picpicxrefxrefxref
        complexed with bgl, zn; mutant
        1. region a:423-832 [42991] picpiclink
      9. 2ktq picpicxref
        complexed with ctp, ddc, mg
        1. region a:423-832 [42995] picpiclink
      10. 5ktq picpicxref
        complexed with ctp
        1. region a:423-832 [42997] picpiclink
      11. 1ktq picpicxref
        1. region a:423-832 [42996] picpiclink
      12. 4ktq picpicxref
        complexed with ddc
        1. region a:423-832 [42999] picpiclink
      13. 1tau picpicxrefxrefxref
        protein/DNA complex; complexed with bgl, zn
        1. region a:423-832 [43000] picpiclink
    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
      1. 2hhv picpicxref
        automatically matched to d1l3sa2
        complexed with 6og, mg, so4, suc
        1. region a:469-876 [136515] picpiclink
      2. 1u4b picpicxref
        complexed with 8og, mg, so4, suc
        1. region a:469-876 [107665] picpiclink
      3. 1nk4 picpicxref
        complexed with mg, so4, suc
        1. region a:469-876 [91924] picpiclink
      4. 1njx picpicxref
        complexed with mg, so4, suc
        1. region a:469-876 [91916] picpiclink
      5. 1l3s picpicxref
        complexed with mg, so4, suc
        1. region a:469-876 [84522] picpiclink
      6. 1nk0 picpicxref
        complexed with mes, so4, suc
        1. region a:469-876 [91922] picpiclink
      7. 1l3t picpicxref
        complexed with mg, so4, suc
        1. region a:469-876 [84524] picpiclink
      8. 1l3v picpicxref
        complexed with mg, so4, suc
        1. region a:469-876 [84528] picpiclink
      9. 1nkc picpicxref
        complexed with mg, so4, suc
        1. region a:469-876 [91938] picpiclink
      10. 2hhu picpicxref
        automatically matched to d1l3sa2
        complexed with 6og, dcp, mg, so4, suc
        1. region a:469-876 [136513] picpiclink
      11. 1l3u picpicxref
        complexed with mg, so4, suc
        1. region a:469-876 [84526] picpiclink
      12. 2hhq picpicxref
        automatically matched to d1l3sa2
        complexed with 6og, mg, so4, suc
        1. region a:469-876 [136507] picpiclink
      13. 1nke picpicxref
        complexed with dcp, mg, so4, suc
        1. region a:469-876 [91940] picpiclink
      14. 2hhw picpicxrefxref
        automatically matched to d1l3sa2
        complexed with 23t, 6og, ddg, mn, so4, suc; mutant
        1. region a:469-876 [136517] picpiclink
      15. 2hhs picpicxref
        automatically matched to d1l3sa2
        complexed with 6og, mg, so4, suc
        1. region a:469-876 [136509] picpiclink
      16. 2hhw picpicxrefxref
        automatically matched to d1l3sa2
        complexed with 23t, 6og, ddg, mn, so4, suc; mutant
        1. region d:469-876 [136519] picpiclink
      17. 1nk8 picpicxref
        complexed with mg, so4, suc
        1. region a:469-876 [91932] picpiclink
      18. 1nk7 picpicxref
        complexed with mg, so4, suc
        1. region a:469-876 [91930] picpiclink
      19. 1nk9 picpicxref
        complexed with mg, so4, suc
        1. region a:469-876 [91934] picpiclink
      20. 1l5u picpicxref
        complexed with mg, so4, suc
        1. region a:469-876 [84530] picpiclink
      21. 1njw picpicxref
        complexed with mg, so4, suc
        1. region a:469-876 [91914] picpiclink
      22. 2hw3 picpicxref
        automatically matched to d1l3sa2
        complexed with 6og, mg, so4, suc
        1. region a:469-876 [136820] picpiclink
      23. 2hvi picpicxrefxref
        automatically matched to d1l3sa2
        complexed with dct, ddg, mg, so4, suc
        1. region a:469-876 [136809] picpiclink
      24. 2hvi picpicxrefxref
        automatically matched to d1l3sa2
        complexed with dct, ddg, mg, so4, suc
        1. region d:469-876 [136811] picpiclink
      25. 1u45 picpicxref
        complexed with 8og, mg, so4, suc
        1. region a:469-876 [107655] picpiclink
      26. 1xc9 picpicxref
        complexed with bp, mg, so4, suc
        1. region a:469-876 [115112] picpiclink
      27. 2hht picpicxref
        automatically matched to d1l3sa2
        complexed with 6og, mg, so4, suc
        1. region a:469-876 [136511] picpiclink
      28. 1njz picpicxref
        complexed with mg, so4, suc
        1. region a:469-876 [91920] picpiclink
      29. 1u47 picpicxref
        complexed with 8og, mg, so4, suc
        1. region a:469-876 [107659] picpiclink
      30. 1njy picpicxref
        complexed with mg, so4, suc, ttp
        1. region a:469-876 [91918] picpiclink
      31. 1nkb picpicxref
        complexed with mg, so4, suc
        1. region a:469-876 [91936] picpiclink
      32. 1ua1 picpicxref
        complexed with af, so4
        1. region a:469-876 [107756] picpiclink
      33. 1nk5 picpicxref
        complexed with mg, so4, suc
        1. region a:469-876 [91926] picpiclink
      34. 1u48 picpicxref
        complexed with 8og, mg, so4, suc
        1. region a:469-876 [107661] picpiclink
      35. 1u49 picpicxref
        complexed with 8og, mg, so4, suc
        1. region a:469-876 [107663] picpiclink
      36. 1nk6 picpicxref
        complexed with so4, suc
        1. region a:469-876 [91928] picpiclink
      37. 1xwl picpicxref
        complexed with so4
        1. region a:469-876 [43001] picpiclink
      38. 2bdp picpicxref
        protein/DNA complex; complexed with mg, so4
        1. region a:469-876 [43002] picpiclink
      39. 1ua0 picpicxref
        complexed with af, so4, suc
        1. region a:469-876 [107754] picpiclink
      40. 4bdp picpicxref
        protein/DNA complex; complexed with mg, so4
        1. region a:469-876 [43003] picpiclink
      41. 2hhx picpicxref
        automatically matched to d1l3sa2
        complexed with 6og, so4, suc
        1. region a:469-876 [136521] picpiclink
      42. 1lv5 picpicxref
        complexed with dcp, mg, mn, so4; mutant
        1. region a:469-876 [84720] picpiclink
        2. region b:469-876 [84722] picpiclink
      43. 2hvh picpicxrefxref
        automatically matched to d1l3sa2
        complexed with 6og, dct, ddg, mn, so4, suc
        1. region a:469-876 [136805] picpiclink
      44. 2hvh picpicxrefxref
        automatically matched to d1l3sa2
        complexed with 6og, dct, ddg, mn, so4, suc
        1. region d:469-876 [136807] picpiclink
      45. 3bdp picpicxref
        protein/DNA complex; complexed with 2dt, so4
        1. region a:469-876 [43004] picpiclink
  2. T7 phage DNA polymerase [56678]
    1. Bacteriophage T7 [TaxId: 10760] [56679] (16)
      SQ P00581
      1. 1x9m picpicxrefxref
        complexed with 2dt, 8fg, mg; mutant
        1. region a:211-704 [115000] picpiclink
      2. 1tk5 picpicxrefxref
        complexed with 1pe, ddg, mes, mg, so4
        1. region a:211-704 [107075] picpiclink
      3. 1t7p picpicxrefxref
        protein/DNA complex; complexed with 2da, dg3, mg; mutant
        1. region a:211-704 [43005] picpiclink
      4. 1x9w picpicxrefxref
        complexed with 2dt, mg; mutant
        1. region a:211-704 [115009] picpiclink
      5. 1sl2 picpicxrefxref
        complexed with 2da, dad, mg, ttd; mutant
        1. region a:211-704 [105707] picpiclink
      6. 1tkd picpicxrefxref
        complexed with 1pe, 8og, d3t, doc, mes, mg, so4
        1. region a:211-704 [107087] picpiclink
      7. 1skr picpicxrefxref
        complexed with 2da, dad, mg; mutant
        1. region a:211-704 [105685] picpiclink
      8. 1sl1 picpicxrefxref
        complexed with 2da, mg, ttd; mutant
        1. region a:211-704 [105704] picpiclink
      9. 1tk0 picpicxrefxref
        complexed with 1pe, 8og, dct, ddg, mes, mg, so4; mutant
        1. region a:211-704 [107064] picpiclink
      10. 1tk8 picpicxrefxref
        complexed with 1pe, 2da, 8og, d3t, mes, mg, so4
        1. region a:211-704 [107080] picpiclink
      11. 1sks picpicxrefxref
        complexed with 2dt, mg, ttd; mutant
        1. region a:211-704 [105688] picpiclink
      12. 1skw picpicxrefxref
        complexed with 2dt, mg; mutant
        1. region a:211-704 [105695] picpiclink
      13. 1t8e picpicxrefxref
        complexed with 2dt, dct, mes, mg, pg4, so4
        1. region a:211-704 [112317] picpiclink
      14. 1x9s picpicxrefxref
        complexed with 2dt, mg; mutant
        1. region a:211-704 [115006] picpiclink
      15. 1zyq picpicxrefxref
        automatically matched to d1skra2
        complexed with 8og, dad, ddg, mg; mutant
        1. region a:211-704 [125847] picpiclink
      16. 1sl0 picpicxrefxref
        complexed with 2dt, dad, mg; mutant
        1. region a:211-704 [105698] picpiclink
        2. region c:211-704 [105701] picpiclink
  3. Family B DNA polymerase [56680]
    1. Escherichia coli [TaxId: 562] [103399] (1)
      1. 1q8i picpicxref
        mutant
        1. region a:390-783 [96209] picpiclink
    2. Bacteriophage RB69 [TaxId: 12353] [56681] (27)
      1. 1ih7 picpicxref
        complexed with gmp, k
        1. region a:376-903 [62376] picpiclink
      2. 3cq8 picpicxref
        automatically matched to d1clqa2
        complexed with ca, gol, na, ttp; mutant
        1. region a:376-902 [156928] picpiclink
      3. 1ig9 picpicxref
        complexed with ca, doc, ttp; mutant
        1. region a:376-901 [62368] picpiclink
      4. 2dy4 picpicxrefxrefxrefxref
        automatically matched to d1clqa2
        complexed with ctg; mutant
        1. region a:376-902 [131883] picpiclink
      5. 2dy4 picpicxrefxrefxrefxref
        automatically matched to d1clqa2
        complexed with ctg; mutant
        1. region b:376-902 [131885] picpiclink
      6. 2dy4 picpicxrefxrefxrefxref
        automatically matched to d1clqa2
        complexed with ctg; mutant
        1. region c:376-900 [131887] picpiclink
      7. 2dy4 picpicxrefxrefxrefxref
        automatically matched to d1clqa2
        complexed with ctg; mutant
        1. region d:376-897 [131889] picpiclink
      8. 2ozm picpicxref
        automatically matched to d1clqa2
        complexed with 3dr, ddg, mg, n5p; mutant
        1. region a:376-903 [149116] picpiclink
      9. 1clq picpicxref
        1. region a:376-903 [43006] picpiclink
      10. 2ozs picpicxref
        automatically matched to d1clqa2
        complexed with ddg, dtp, mg; mutant
        1. region a:376-903 [149128] picpiclink
      11. 2p5g picpicxrefxrefxrefxref
        automatically matched to d1clqa2
        complexed with 3dr; mutant
        1. region a:376-903 [149241] picpiclink
      12. 2p5g picpicxrefxrefxrefxref
        automatically matched to d1clqa2
        complexed with 3dr; mutant
        1. region b:376-899 [149243] picpiclink
      13. 2p5g picpicxrefxrefxrefxref
        automatically matched to d1clqa2
        complexed with 3dr; mutant
        1. region c:376-898 [149245] picpiclink
      14. 2p5g picpicxrefxrefxrefxref
        automatically matched to d1clqa2
        complexed with 3dr; mutant
        1. region d:376-899 [149247] picpiclink
      15. 1q9y picpicxref
        complexed with 8og, ca, dcp, doc; mutant
        1. region a:376-902 [96337] picpiclink
      16. 1q9x picpicxref
        complexed with 3dr, ca, dgp, doc; mutant
        1. region a:376-903 [96329] picpiclink
        2. region b:376-903 [96331] picpiclink
        3. region c:376-903 [96333] picpiclink
        4. region d:376-903 [96335] picpiclink
      17. 2p5o picpicxrefxrefxrefxref
        automatically matched to d1clqa2
        complexed with 3dr; mutant
        1. region a:376-902 [139499] picpiclink
      18. 2p5o picpicxrefxrefxrefxref
        automatically matched to d1clqa2
        complexed with 3dr; mutant
        1. region b:376-901 [139501] picpiclink
      19. 2p5o picpicxrefxrefxrefxref
        automatically matched to d1clqa2
        complexed with 3dr; mutant
        1. region c:376-898 [139503] picpiclink
      20. 2p5o picpicxrefxrefxrefxref
        automatically matched to d1clqa2
        complexed with 3dr; mutant
        1. region d:376-896 [139505] picpiclink
      21. 2oyq picpicxrefxrefxrefxref
        automatically matched to d1clqa2
        complexed with 3dr, mg, n5i, n5p; mutant
        1. region a:376-903 [149071] picpiclink
      22. 2oyq picpicxrefxrefxrefxref
        automatically matched to d1clqa2
        complexed with 3dr, mg, n5i, n5p; mutant
        1. region b:376-899 [149073] picpiclink
      23. 2oyq picpicxrefxrefxrefxref
        automatically matched to d1clqa2
        complexed with 3dr, mg, n5i, n5p; mutant
        1. region c:376-900 [149075] picpiclink
      24. 2oyq picpicxrefxrefxrefxref
        automatically matched to d1clqa2
        complexed with 3dr, mg, n5i, n5p; mutant
        1. region d:376-898 [149077] picpiclink
      25. 1waj picpicxref
        complexed with 5gp
        1. region a:376-903 [43007] picpiclink
      26. 1waf picpicxref
        complexed with gmp
        1. region a:376-903 [43008] picpiclink
        2. region b:376-903 [43009] picpiclink
      27. 2atq picpicxrefxref
        automatically matched to d1clqa2
        complexed with gdp, zn; mutant
        1. region a:376-903 [127304] picpiclink
    3. Archaeon Thermococcus gorgonarius [TaxId: 71997] [56682] (3)
      1. 1tgo picpicxref
        1. region a:348-773 [43010] picpiclink
      2. 2vwk picpicxref
        automatically matched to d1tgoa2
        complexed with na, so4; mutant
        1. region a:348-773 [153678] picpiclink
      3. 2vwj picpicxref
        automatically matched to d1qqca2
        complexed with k; mutant
        1. region a:348-756 [153676] picpiclink
    4. Archaeon Thermococcus sp., 9on-7 [TaxId: 35749] [56683] (1)
      1. 1qht picpicxref
        mutant
        1. region a:348-750 [43011] picpiclink
    5. Archaeon Desulfurococcus tok [TaxId: 108142] [56684] (2)
      1. 1d5a picpicxref
        complexed with mg, so4
        1. region a:348-756 [43012] picpiclink
      2. 1qqc picpicxref
        complexed with mg, so4
        1. region a:348-756 [43013] picpiclink
    6. Archaeon Pyrococcus kodakaraensis [TaxId: 311400] [56685] (2)
      SQ P56689 1-758 # 93% sequence identity; Thermococcus kodakarensis KOD1 TaxID: 69014
      1. 1wn7 picpicxref
        complexed with gol, ni; mutant
        1. region a:348-756 [121089] picpiclink
      2. 1wns picpicxref
        1. region a:348-758 [109438] picpiclink
    7. Sulfolobus solfataricus [TaxId: 2287] [118192] (1)
      SQ P26811 40-864
      1. 1s5j picpicxref
        complexed with mg, sul
        1. region a:450-864 [112041] picpiclink
  4. phi29 DNA polymerase [118193]
    1. Bacteriophage phi-29 [TaxId: 10756] [118194] (18)
      SQ P03680
      1. 2py5 picpicxrefxref
        automatically matched to d1xhxa2
        complexed with edo; mutant
        1. region a:188-575 [149929] picpiclink
      2. 2py5 picpicxrefxref
        automatically matched to d1xhxa2
        complexed with edo; mutant
        1. region b:188-575 [149931] picpiclink
      3. 2pyj picpicxrefxref
        automatically matched to d1xhxa2
        complexed with dgt, doc, edo, mg, mn; mutant
        1. region a:188-575 [149944] picpiclink
      4. 2pyj picpicxrefxref
        automatically matched to d1xhxa2
        complexed with dgt, doc, edo, mg, mn; mutant
        1. region b:188-575 [149946] picpiclink
      5. 2pyl picpicxref
        automatically matched to d1xhxa2
        complexed with 2da, edo, mg, ttp; mutant
        1. region a:188-575 [149948] picpiclink
      6. 1xhx picpicxref
        complexed with mg, so4; mutant
        1. region a:188-575 [115306] picpiclink
      7. 1xi1 picpicxref
        complexed with mg; mutant
        1. region a:188-575 [115310] picpiclink
      8. 1xhz picpicxref
        mutant
        1. region a:188-575 [115308] picpiclink
      9. 2pzs picpicxrefxrefxrefxref
        automatically matched to d1xhxa2
        mutant
        1. region a:188-575 [149966] picpiclink
      10. 2pzs picpicxrefxrefxrefxref
        automatically matched to d1xhxa2
        mutant
        1. region b:188-575 [149968] picpiclink
      11. 2pzs picpicxrefxrefxrefxref
        automatically matched to d1xhxa2
        mutant
        1. region c:188-575 [149970] picpiclink
      12. 2pzs picpicxrefxrefxrefxref
        automatically matched to d1xhxa2
        mutant
        1. region d:188-574 [149972] picpiclink
      13. 2ex3 picpicxrefxrefxrefxrefxrefxrefxrefxrefxrefxrefxrefxref
        complexed with pb; mutant
        1. region a:188-575 [132499] picpiclink
      14. 2ex3 picpicxrefxrefxrefxrefxrefxrefxrefxrefxrefxrefxrefxref
        automatically matched to 2EX3 A:188-575
        complexed with pb; mutant
        1. region c:188-575 [132502] picpiclink
      15. 2ex3 picpicxrefxrefxrefxrefxrefxrefxrefxrefxrefxrefxrefxref
        automatically matched to 2EX3 A:188-575
        complexed with pb; mutant
        1. region e:188-575 [132505] picpiclink
      16. 2ex3 picpicxrefxrefxrefxrefxrefxrefxrefxrefxrefxrefxrefxref
        automatically matched to 2EX3 A:188-575
        complexed with pb; mutant
        1. region g:188-575 [132508] picpiclink
      17. 2ex3 picpicxrefxrefxrefxrefxrefxrefxrefxrefxrefxrefxrefxref
        automatically matched to 2EX3 A:188-575
        complexed with pb; mutant
        1. region i:188-575 [132511] picpiclink
      18. 2ex3 picpicxrefxrefxrefxrefxrefxrefxrefxrefxrefxrefxrefxref
        automatically matched to 2EX3 A:188-575
        complexed with pb; mutant
        1. region k:188-575 [132514] picpiclink
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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