Structural Classification of Proteins

Superfamily: DNA clamp

: uperfamily

Lineage:

Root: scop
Class: Alpha and beta proteins (a+b) [53931]
Mainly antiparallel beta sheets (segregated alpha and beta regions)
Fold: DNA clamp [55978]
contains two helices and two beta sheets
duplication: fold has internal pseudo two-fold symmetry
Superfamily: DNA clamp [55979]
uperfamily

Families:

DNA polymerase III, beta subunit [55980] (2)
duplication: consists of three domains of this fold
1. DNA polymerase III, beta subunit [55981]
  1. Escherichia coli [TaxId: 562] [55982] (30)
    SQ P00583
    1. 1ok7
      1. region a:1-122 [103992]
      2. region a:123-244 [103993]
      3. region a:245-366 [103994]
      4. region b:1-122 [103995]
      5. region b:123-244 [103996]
      6. region b:245-366 [103997]
    2. 3d1g
      automatically matched to d1jqja1
      complexed with 322
      1. region a:1-122 [157200]
    3. 3d1g
      automatically matched to d1jqja2
      complexed with 322
      1. region a:123-244 [157201]
    4. 3d1g
      automatically matched to d1jqja3
      complexed with 322
      1. region a:245-366 [157202]
    5. 3d1g
      automatically matched to d1jqja1
      complexed with 322
      1. region b:1-122 [157203]
    6. 3d1g
      automatically matched to d1jqja2
      complexed with 322
      1. region b:123-244 [157204]
    7. 3d1g
      automatically matched to d1jqja3
      complexed with 322
      1. region b:245-366 [157205]
    8. 1unn
      complexed with so4
      1. region a:1-122 [99674]
      2. region a:123-244 [99675]
      3. region a:245-366 [99676]
      4. region b:1-122 [99677]
      5. region b:123-244 [99678]
      6. region b:245-366 [99679]
    9. 3bep
      automatically matched to d1jqja1
      complexed with 5cy
      1. region a:1-122 [155190]
    10. 3bep
      automatically matched to d1jqja2
      complexed with 5cy
      1. region a:123-244 [155191]
    11. 3bep
      automatically matched to d1jqja3
      complexed with 5cy
      1. region a:245-366 [155192]
    12. 3bep
      automatically matched to d1jqja1
      complexed with 5cy
      1. region b:1-122 [155193]
    13. 3bep
      automatically matched to d1jqja2
      complexed with 5cy
      1. region b:123-244 [155194]
    14. 3bep
      automatically matched to d1jqja3
      complexed with 5cy
      1. region b:245-366 [155195]
    15. 3d1e
      automatically matched to d1jqja1
      1. region a:1-122 [157188]
    16. 3d1e
      automatically matched to d1jqja2
      1. region a:123-244 [157189]
    17. 3d1e
      automatically matched to d1jqja3
      1. region a:245-366 [157190]
    18. 3d1e
      automatically matched to d1jqja1
      1. region b:1-122 [157191]
    19. 3d1e
      automatically matched to d1jqja2
      1. region b:123-244 [157192]
    20. 3d1e
      automatically matched to d1jqja3
      1. region b:245-366 [157193]
    21. 3d1f
      automatically matched to d1jqja1
      complexed with 323, peg
      1. region a:1-122 [157194]
    22. 3d1f
      automatically matched to d1jqja2
      complexed with 323, peg
      1. region a:123-244 [157195]
    23. 3d1f
      automatically matched to d1jqja3
      complexed with 323, peg
      1. region a:245-366 [157196]
    24. 3d1f
      automatically matched to d1jqja1
      complexed with 323, peg
      1. region b:1-122 [157197]
    25. 3d1f
      automatically matched to d1jqja2
      complexed with 323, peg
      1. region b:123-244 [157198]
    26. 3d1f
      automatically matched to d1jqja3
      complexed with 323, peg
      1. region b:245-366 [157199]
    27. 1mmi
      1. region a:1-122 [91309]
      2. region a:123-244 [91310]
      3. region a:245-366 [91311]
      4. region b:1-122 [91312]
      5. region b:123-244 [91313]
      6. region b:245-366 [91314]
    28. 2pol
      1. region a:1-122 [41356]
      2. region a:123-244 [41357]
      3. region a:245-366 [41358]
      4. region b:1-122 [41359]
      5. region b:123-244 [41360]
      6. region b:245-366 [41361]
    29. 1jql
      mutant
      1. region a:1-122 [63231]
      2. region a:123-244 [63232]
      3. region a:245-366 [63233]
    30. 1jqj
      mutant
      1. region a:1-122 [67091]
      2. region a:123-244 [67092]
      3. region a:245-366 [67093]
      4. region b:1-122 [67094]
      5. region b:123-244 [67095]
      6. region b:245-366 [67096]
  2. Thermotoga maritima [TaxId: 2336] [118108] (1)
    SQ Q9WYA0
    1. 1vpk
      Structural genomics target
      1. region a:1-120 [113963]
      2. region a:121-243 [113964]
      3. region a:244-366 [113965]
DNA polymerase processivity factor [55983] (9)
duplication: consists of two domains of this fold
1. gp45 sliding clamp [55984]
  1. Bacteriophage RB69 [TaxId: 12353] [55985] (2)
    1. 1b77
      1. region a:1-110 [41362]
      2. region a:111-228 [41363]
      3. region b:1-110 [41364]
      4. region b:111-228 [41365]
      5. region c:1-110 [41366]
      6. region c:111-228 [41367]
    2. 1b8h
      1. region a:1-110 [41368]
      2. region a:111-228 [41369]
      3. region b:1-110 [41370]
      4. region b:111-228 [41371]
      5. region c:1-110 [41372]
      6. region c:111-228 [41373]
  2. Bacteriophage T4 [TaxId: 10665] [55986] (1)
    1. 1czd
      1. region a:1001-1110 [41374]
      2. region a:1111-1228 [41375]
      3. region b:2001-2110 [41376]
      4. region b:2111-2228 [41377]
      5. region c:3001-3110 [41378]
      6. region c:3111-3228 [41379]
2. UL42 [55987]
  1. Human herpesvirus type 1 [TaxId: 10298] [55988] (1)
    1. 1dml
      1. region a:29-169 [41380]
      2. region a:170-319 [41381]
      3. region c:29-169 [41382]
      4. region c:170-319 [41383]
      5. region e:28-169 [41384]
      6. region e:170-319 [41385]
      7. region g:28-169 [41386]
      8. region g:170-319 [41387]
3. Proliferating cell nuclear antigen (PCNA) [55989]
  1. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [55990] (5)
    SQ P15873
    1. 1plq
      CASP1
      complexed with hg
      1. region a:1-126 [41388]
      2. region a:127-258 [41389]
    2. 2od8
      automatically matched to d1plq_1
      1. region a:1-126 [139024]
    3. 2od8
      automatically matched to d1plq_2
      1. region a:127-255 [139025]
    4. 1sxj
      complexed with adp, atg, mg; mutant
      1. region f:1-126 [106091]
      2. region f:127-256 [106092]
      3. region g:1-126 [106093]
      4. region g:127-255 [106094]
      5. region h:1-126 [106095]
      6. region h:127-254 [106096]
    5. 1plr
      1. region a:1-126 [41390]
      2. region a:127-258 [41391]
  2. Human (Homo sapiens) [TaxId: 9606] [55991] (31)
    SQ P12004
    1. 1u7b
      complexed with a target peptide
      1. region a:1-126 [113083]
      2. region a:127-255 [113084]
    2. 1axc
      1. region a:1-126 [41392]
      2. region a:127-255 [41393]
      3. region c:1-126 [41394]
      4. region c:127-255 [41395]
      5. region e:1-126 [41396]
      6. region e:127-255 [41397]
    3. 1vym
      automatically matched to d1axca1
      1. region a:1-126 [120542]
    4. 1vym
      automatically matched to d1axca2
      1. region a:127-255 [120543]
    5. 1vym
      automatically matched to d1axca1
      1. region b:1-126 [120544]
    6. 1vym
      automatically matched to d1axca2
      1. region b:127-255 [120545]
    7. 1vym
      automatically matched to d1axca1
      1. region c:1-126 [120546]
    8. 1vym
      automatically matched to d1axca2
      1. region c:127-255 [120547]
    9. 1u76
      complexed with a target peptide
      1. region a:1-126 [113077]
      2. region a:127-255 [113078]
      3. region c:1-126 [113079]
      4. region c:127-255 [113080]
      5. region e:1-126 [113081]
      6. region e:127-255 [113082]
    10. 1vyj
      automatically matched to d1axca1
      1. region a:1-126 [120530]
    11. 1vyj
      automatically matched to d1axca2
      1. region a:127-255 [120531]
    12. 1vyj
      automatically matched to d1axca1
      1. region c:1-126 [120532]
    13. 1vyj
      automatically matched to d1axca2
      1. region c:127-255 [120533]
    14. 1vyj
      automatically matched to d1axca1
      1. region e:1-126 [120534]
    15. 1vyj
      automatically matched to d1axca2
      1. region e:127-255 [120535]
    16. 1vyj
      automatically matched to d1axca1
      1. region g:1-126 [120536]
    17. 1vyj
      automatically matched to d1axca2
      1. region g:127-255 [120537]
    18. 1vyj
      automatically matched to d1axca1
      1. region i:1-126 [120538]
    19. 1vyj
      automatically matched to d1axca2
      1. region i:127-255 [120539]
    20. 1vyj
      automatically matched to d1axca1
      1. region k:1-126 [120540]
    21. 1vyj
      automatically matched to d1axca2
      1. region k:127-255 [120541]
    22. 1ul1
      automatically matched to d1axca1
      complexed with mg
      1. region a:1-126 [119684]
    23. 1ul1
      automatically matched to d1axca2
      complexed with mg
      1. region a:127-255 [119685]
    24. 1ul1
      automatically matched to d1axca1
      complexed with mg
      1. region b:1-126 [119686]
    25. 1ul1
      automatically matched to d1axca2
      complexed with mg
      1. region b:127-255 [119687]
    26. 1ul1
      automatically matched to d1axca1
      complexed with mg
      1. region c:1-126 [119688]
    27. 1ul1
      automatically matched to d1axca2
      complexed with mg
      1. region c:127-255 [119689]
    28. 1w60
      automatically matched to d1axca1
      1. region a:1-126 [120648]
    29. 1w60
      automatically matched to d1axca2
      1. region a:127-255 [120649]
    30. 1w60
      automatically matched to d1axca1
      1. region b:1-126 [120650]
    31. 1w60
      automatically matched to d1axca2
      1. region b:127-255 [120651]
  3. Archaeon Pyrococcus furiosus [TaxId: 2261] [55992] (4)
    1. 1iz5
      mutant
      1. region a:2-120 [83834]
      2. region a:126-246 [83835]
      3. region b:2-120 [83836]
      4. region b:126-246 [83837]
    2. 1ge8
      mutant
      1. region a:2-117 [41398]
      2. region a:126-247 [41399]
    3. 1iz4
      mutant
      1. region a:2-120 [83832]
      2. region a:126-247 [83833]
    4. 1isq
      complexed with ace; mutant
      1. region a:2-119 [76779]
      2. region a:126-247 [76780]
  4. Archaeon Archaeoglobus fulgidus [TaxId: 2234] [103254] (3)
    1. 1rwz
      1. region a:1-122 [98005]
      2. region a:123-244 [98006]
    2. 1rxz
      complexed with a FEN-1 peptide, chain B
      1. region a:1-122 [98067]
      2. region a:123-245 [98068]
    3. 1rxm
      complexed with a FEN-1 peptide, chain B
      1. region a:1-122 [98035]
      2. region a:123-245 [98036]
  5. Archaeon Sulfolobus tokodaii [TaxId: 111955] [111175] (1)
    SQ Q975N2
    1. 1ud9
      complexed with zn
      1. region a:1-119 [107768]
      2. region a:127-245 [107769]
      3. region b:1-119 [107770]
      4. region b:127-245 [107771]
      5. region c:1-119 [107772]
      6. region c:127-245 [107773]
      7. region d:1-119 [107774]
      8. region d:127-245 [107775]
4. UL44 [111176]
  1. Human cytomegalovirus, HHV-5 [TaxId: 10359] [111177] (3)
    SQ P16790 1-290
    1. 1t6l
      1. region a:10-135 [106574]
      2. region a:136-270 [106575]
    2. 1yyp
      automatically matched to d1t6la1
      complexed with edo, so4
      1. region a:10-135 [124248]
    3. 1yyp
      automatically matched to d1t6la2
      complexed with edo, so4
      1. region a:136-270 [124249]