SCOP 1.67: Protein: Exonuclease domain of prokaryotic DNA polymerase

Lineage for Protein: Exonuclease domain of prokaryotic DNA polymerase

Root: SCOP 1.67
Class c: Alpha and beta proteins (a/b) [51349] (130 folds)
Fold 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
Superfamily c.55.3: Ribonuclease H-like [53098] (9 families)
consists of one domain of this fold
Family c.55.3.5: DnaQ-like 3'-5' exonuclease [53118] (7 proteins)
Protein Exonuclease domain of prokaryotic DNA polymerase [53119] (3 species)
part of Klenow fragment, KF

Species:

Bacillus stearothermophilus, newly identified strain as yet unnamed [TaxId:1422] [53122] (24 PDB entries)
1. Domain for 1l3s:
  - Domain d1l3sa1: 1l3s A:297-468 [84521]
    Other proteins in same PDB: d1l3sa2
    complexed with mg, so4, suc
2. Domain for 1l3t:
  - Domain d1l3ta1: 1l3t A:297-468 [84523]
    Other proteins in same PDB: d1l3ta2
    complexed with mg, so4, suc
3. Domain for 1l3u:
  - Domain d1l3ua1: 1l3u A:297-468 [84525]
    Other proteins in same PDB: d1l3ua2
    complexed with mg, so4, suc
4. Domain for 1l3v:
  - Domain d1l3va1: 1l3v A:297-468 [84527]
    Other proteins in same PDB: d1l3va2
    complexed with mg, so4, suc
5. Domain for 1l5u:
  - Domain d1l5ua1: 1l5u A:297-468 [84529]
    Other proteins in same PDB: d1l5ua2
    complexed with mg, so4, suc
6. Domains for 1lv5:
  1. Domain d1lv5a1: 1lv5 A:297-468 [84719]
    Other proteins in same PDB: d1lv5a2, d1lv5b2
  2. Domain d1lv5b1: 1lv5 B:297-468 [84721]
    Other proteins in same PDB: d1lv5a2, d1lv5b2
    complexed with dcp, mg, mn, so4; mutant
7. Domain for 1njw:
  - Domain d1njwa1: 1njw A:297-468 [91913]
    Other proteins in same PDB: d1njwa2
    complexed with mg, so4, suc
8. Domain for 1njx:
  - Domain d1njxa1: 1njx A:297-468 [91915]
    Other proteins in same PDB: d1njxa2
    complexed with mg, so4, suc
9. Domain for 1njy:
  - Domain d1njya1: 1njy A:297-468 [91917]
    Other proteins in same PDB: d1njya2
    complexed with mg, so4, suc, ttp
10. Domain for 1njz:
  - Domain d1njza1: 1njz A:297-468 [91919]
    Other proteins in same PDB: d1njza2
    complexed with mg, so4, suc
11. Domain for 1nk0:
  - Domain d1nk0a1: 1nk0 A:297-468 [91921]
    Other proteins in same PDB: d1nk0a2
    complexed with mes, so4, suc
12. Domain for 1nk4:
  - Domain d1nk4a1: 1nk4 A:297-468 [91923]
    Other proteins in same PDB: d1nk4a2
    complexed with mg, so4, suc
13. Domain for 1nk5:
  - Domain d1nk5a1: 1nk5 A:297-468 [91925]
    Other proteins in same PDB: d1nk5a2
    complexed with mg, so4, suc
14. Domain for 1nk6:
  - Domain d1nk6a1: 1nk6 A:297-468 [91927]
    Other proteins in same PDB: d1nk6a2
    complexed with so4, suc
15. Domain for 1nk7:
  - Domain d1nk7a1: 1nk7 A:297-468 [91929]
    Other proteins in same PDB: d1nk7a2
    complexed with mg, so4, suc
16. Domain for 1nk8:
  - Domain d1nk8a1: 1nk8 A:297-468 [91931]
    Other proteins in same PDB: d1nk8a2
    complexed with mg, so4, suc
17. Domain for 1nk9:
  - Domain d1nk9a1: 1nk9 A:297-468 [91933]
    Other proteins in same PDB: d1nk9a2
    complexed with mg, so4, suc
18. Domain for 1nkb:
  - Domain d1nkba1: 1nkb A:297-468 [91935]
    Other proteins in same PDB: d1nkba2
    complexed with mg, so4, suc
19. Domain for 1nkc:
  - Domain d1nkca1: 1nkc A:297-468 [91937]
    Other proteins in same PDB: d1nkca2
    complexed with mg, so4, suc
20. Domain for 1nke:
  - Domain d1nkea1: 1nke A:297-468 [91939]
    Other proteins in same PDB: d1nkea2
    complexed with dcp, mg, so4, suc
21. Domain for 1xwl:
  - Domain d1xwl_1: 1xwl 297-468 [33708]
    Other proteins in same PDB: d1xwl_2
    complexed with so4
22. Domain for 2bdp:
  - Domain d2bdpa1: 2bdp A:297-468 [33709]
    Other proteins in same PDB: d2bdpa2
    protein/DNA complex; complexed with mg, so4
23. Domain for 3bdp:
  - Domain d3bdpa1: 3bdp A:297-468 [33711]
    Other proteins in same PDB: d3bdpa2
    protein/DNA complex; complexed with 2dt, so4
24. Domain for 4bdp:
  - Domain d4bdpa1: 4bdp A:297-468 [33710]
    Other proteins in same PDB: d4bdpa2
    protein/DNA complex; complexed with mg, so4
Escherichia coli [TaxId:562] [53120] (14 PDB entries)
1. Domain for 1d8y:
  - Domain d1d8ya1: 1d8y A:324-518 [33684]
    Other proteins in same PDB: d1d8ya2
2. Domain for 1d9d:
  - Domain d1d9da1: 1d9d A:324-518 [33688]
    Other proteins in same PDB: d1d9da2
3. Domain for 1d9f:
  - Domain d1d9fa1: 1d9f A:324-518 [33691]
    Other proteins in same PDB: d1d9fa2
4. Domain for 1dpi:
  - Domain d1dpi_1: 1dpi 326-518 [33692]
    Other proteins in same PDB: d1dpi_2
    complexed with zn
5. Domain for 1kfd:
  - Domain d1kfd_1: 1kfd 324-518 [33694]
    Other proteins in same PDB: d1kfd_2
    complexed with ctp
6. Domain for 1kfs:
  - Domain d1kfsa1: 1kfs A:324-518 [33681]
    Other proteins in same PDB: d1kfsa2
    protein/DNA complex; complexed with mg, zn; mutant
7. Domain for 1kln:
  - Domain d1klna1: 1kln A:324-518 [33693]
    Other proteins in same PDB: d1klna2
    protein/DNA complex; complexed with zn; mutant
8. Domain for 1krp:
  - Domain d1krpa1: 1krp A:324-518 [33685]
    Other proteins in same PDB: d1krpa2
    protein/DNA complex; complexed with pst, zn; mutant
9. Domain for 1ksp:
  - Domain d1kspa1: 1ksp A:324-518 [33687]
    Other proteins in same PDB: d1kspa2
    protein/DNA complex; complexed with pst, zn; mutant
10. Domain for 1qsl:
  - Domain d1qsla1: 1qsl A:324-518 [33686]
    Other proteins in same PDB: d1qsla2
    complexed with eu; mutant
11. Domain for 2kfn:
  - Domain d2kfna1: 2kfn A:324-518 [33682]
    Other proteins in same PDB: d2kfna2
    protein/DNA complex; complexed with mg, mn, s, zn
12. Domain for 2kfz:
  - Domain d2kfza1: 2kfz A:324-518 [33683]
    Other proteins in same PDB: d2kfza2
    protein/DNA complex; complexed with mg, s, zn
13. Domain for 2kzm:
  - Domain d2kzma1: 2kzm A:324-518 [33690]
    Other proteins in same PDB: d2kzma2
    protein/DNA complex; complexed with mn, zn
14. Domain for 2kzz:
  - Domain d2kzza1: 2kzz A:324-518 [33689]
    Other proteins in same PDB: d2kzza2
    protein/DNA complex; complexed with zn
Thermus aquaticus [TaxId:271] [53121] (13 PDB entries)
1. Domain for 1bgx:
  - Domain d1bgxt3: 1bgx T:290-422 [33699]
    Other proteins in same PDB: d1bgxh1, d1bgxh2, d1bgxl1, d1bgxl2, d1bgxt1, d1bgxt2, d1bgxt4
2. Domain for 1cmw:
  - Domain d1cmwa3: 1cmw A:290-422 [33701]
    Other proteins in same PDB: d1cmwa1, d1cmwa2, d1cmwa4
3. Domain for 1jxe:
  - Domain d1jxe_1: 1jxe 293-422 [33705]
    Other proteins in same PDB: d1jxe_2
4. Domain for 1ktq:
  - Domain d1ktq_1: 1ktq 290-422 [33703]
    Other proteins in same PDB: d1ktq_2
5. Domain for 1qss:
  - Domain d1qssa1: 1qss A:293-422 [33697]
    Other proteins in same PDB: d1qssa2
    protein/DNA complex; complexed with ddg, dg3, mg; mutant
6. Domain for 1qsy:
  - Domain d1qsya1: 1qsy A:293-422 [33700]
    Other proteins in same PDB: d1qsya2
    protein/DNA complex; complexed with 2da, dad, mg; mutant
7. Domain for 1qtm:
  - Domain d1qtma1: 1qtm A:293-422 [33695]
    Other proteins in same PDB: d1qtma2
    protein/DNA complex; complexed with 2dt, mg, ttp
8. Domain for 1taq:
  - Domain d1taq_3: 1taq 290-422 [33698]
    Other proteins in same PDB: d1taq_1, d1taq_2, d1taq_4
    complexed with bgl, zn; mutant
9. Domain for 1tau:
  - Domain d1taua3: 1tau A:290-422 [33707]
    Other proteins in same PDB: d1taua1, d1taua2, d1taua4
    protein/DNA complex; complexed with bgl, zn
10. Domain for 2ktq:
  - Domain d2ktqa1: 2ktq A:295-422 [33702]
    Other proteins in same PDB: d2ktqa2
    complexed with ctp, ddc, mg
11. Domain for 3ktq:
  - Domain d3ktqa1: 3ktq A:293-422 [33696]
    Other proteins in same PDB: d3ktqa2
    complexed with ctp, ddc, mg
12. Domain for 4ktq:
  - Domain d4ktqa1: 4ktq A:294-422 [33706]
    Other proteins in same PDB: d4ktqa2
    complexed with ddc
13. Domain for 5ktq:
  - Domain d5ktqa1: 5ktq A:290-422 [33704]
    Other proteins in same PDB: d5ktqa2
    complexed with ctp

More info for Protein Exonuclease domain of prokaryotic DNA polymerase from c.55.3.5: DnaQ-like 3'-5' exonuclease

Timeline for Protein Exonuclease domain of prokaryotic DNA polymerase from c.55.3.5: DnaQ-like 3'-5' exonuclease:

Protein Exonuclease domain of prokaryotic DNA polymerase from c.55.3.5: DnaQ-like 3'-5' exonuclease first appeared (with stable ids) in SCOP 1.55
Protein Exonuclease domain of prokaryotic DNA polymerase from c.55.3.5: DnaQ-like 3'-5' exonuclease appears in SCOP 1.65
Protein Exonuclease domain of prokaryotic DNA polymerase from c.55.3.5: DnaQ-like 3'-5' exonuclease appears in SCOP 1.69
Protein Exonuclease domain of prokaryotic DNA polymerase from c.55.3.5: DnaQ-like 3'-5' exonuclease appears in the current release, SCOPe 2.07