SCOPe 2.06: Protein: automated matches

Lineage for Protein: automated matches

Root: SCOPe 2.06
Class e: Multi-domain proteins (alpha and beta) [56572] (69 folds)
Fold 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
Superfamily e.8.1: DNA/RNA polymerases [56672] (7 families)
"palm" domain has a ferredoxin-like fold, related to that of an adenylyl cyclase domain
Family e.8.1.1: DNA polymerase I [56673] (5 proteins)
Protein automated matches [226972] (9 species)
not a true protein

Species:

Escherichia coli K-12 [TaxId:83333] [225830] (1 PDB entry)
- Domains for 3k5o:
  1. Domain d3k5oa2: 3k5o A:390-783 [212171]
    Other proteins in same PDB: d3k5oa1, d3k5ob1
    automated match to d1q8ia2
  2. Domain d3k5ob2: 3k5o B:390-783 [212173]
    Other proteins in same PDB: d3k5oa1, d3k5ob1
    automated match to d1q8ia2
Escherichia coli [TaxId:562] [225831] (3 PDB entries)
1. Domain for 3k5l:
  - Domain d3k5la2: 3k5l A:390-778 [212167]
    Other proteins in same PDB: d3k5la1, d3k5la3
    automated match to d1q8ia2
    protein/DNA complex; complexed with dtp, mg
2. Domain for 3k5m:
  - Domain d3k5ma2: 3k5m A:390-770 [212169]
    Other proteins in same PDB: d3k5ma1, d3k5ma3
    automated match to d1q8ia2
    protein/DNA complex; complexed with ca, dg3
3. Domains for 3k5n:
  1. Domain d3k5na2: 3k5n A:390-783 [247114]
    Other proteins in same PDB: d3k5na1, d3k5nb1, d3k5nb3
    automated match to d1q8ia2
    protein/DNA complex
  2. Domain d3k5nb2: 3k5n B:390-769 [247116]
    Other proteins in same PDB: d3k5na1, d3k5nb1, d3k5nb3
    automated match to d1q8ia2
    protein/DNA complex
Geobacillus kaustophilus [TaxId:1462] [233275] (8 PDB entries)
1. Domains for 3pv8:
  1. Domain d3pv8a2: 3pv8 A:469-876 [233277]
    Other proteins in same PDB: d3pv8a1, d3pv8d1
    automated match to d2hhva2
    protein/DNA complex; complexed with d3t, mg, so4
  2. Domain d3pv8d2: 3pv8 D:469-876 [233276]
    Other proteins in same PDB: d3pv8a1, d3pv8d1
    automated match to d2hhva2
    protein/DNA complex; complexed with d3t, mg, so4
2. Domains for 3px0:
  1. Domain d3px0a2: 3px0 A:469-876 [248706]
    Other proteins in same PDB: d3px0a1, d3px0d1
    automated match to d3pv8d2
    protein/DNA complex; complexed with dcp, mn, so4
  2. Domain d3px0d2: 3px0 D:469-876 [248708]
    Other proteins in same PDB: d3px0a1, d3px0d1
    automated match to d3pv8d2
    protein/DNA complex; complexed with dcp, mn, so4
3. Domains for 3px4:
  1. Domain d3px4a2: 3px4 A:469-876 [248710]
    Other proteins in same PDB: d3px4a1, d3px4d1
    automated match to d3pv8d2
    protein/DNA complex; complexed with dct, mg, so4
  2. Domain d3px4d2: 3px4 D:469-876 [248712]
    Other proteins in same PDB: d3px4a1, d3px4d1
    automated match to d3pv8d2
    protein/DNA complex; complexed with dct, mg, so4
4. Domains for 3px6:
  1. Domain d3px6a2: 3px6 A:469-876 [248714]
    Other proteins in same PDB: d3px6a1, d3px6d1
    automated match to d3pv8d2
    protein/DNA complex; complexed with dct, mn, so4
  2. Domain d3px6d2: 3px6 D:469-876 [248716]
    Other proteins in same PDB: d3px6a1, d3px6d1
    automated match to d3pv8d2
    protein/DNA complex; complexed with dct, mn, so4
5. Domains for 4dse:
  1. Domain d4dsea2: 4dse A:469-876 [251538]
    Other proteins in same PDB: d4dsea1, d4dsed1
    automated match to d3pv8d2
    protein/DNA complex; complexed with ctp, so4
  2. Domain d4dsed2: 4dse D:469-876 [251540]
    Other proteins in same PDB: d4dsea1, d4dsed1
    automated match to d3pv8d2
    protein/DNA complex; complexed with ctp, so4
6. Domains for 4dsf:
  1. Domain d4dsfa2: 4dsf A:469-876 [251542]
    Other proteins in same PDB: d4dsfa1, d4dsfd1
    automated match to d3pv8d2
    protein/DNA complex; complexed with ctp, so4
  2. Domain d4dsfd2: 4dsf D:469-876 [251544]
    Other proteins in same PDB: d4dsfa1, d4dsfd1
    automated match to d3pv8d2
    protein/DNA complex; complexed with ctp, so4
7. Domains for 4ez6:
  1. Domain d4ez6a2: 4ez6 A:469-876 [251826]
    Other proteins in same PDB: d4ez6a1, d4ez6d1
    automated match to d3pv8d2
    protein/DNA complex; complexed with dg3, mpd, so4
  2. Domain d4ez6d2: 4ez6 D:469-876 [251828]
    Other proteins in same PDB: d4ez6a1, d4ez6d1
    automated match to d3pv8d2
    protein/DNA complex; complexed with dg3, mpd, so4
8. Domains for 4ez9:
  1. Domain d4ez9a2: 4ez9 A:469-875 [251830]
    Other proteins in same PDB: d4ez9a1, d4ez9d1
    automated match to d3pv8d2
    protein/DNA complex; complexed with d3t, mpd, so4
  2. Domain d4ez9d2: 4ez9 D:469-876 [251832]
    Other proteins in same PDB: d4ez9a1, d4ez9d1
    automated match to d3pv8d2
    protein/DNA complex; complexed with d3t, mpd, so4
Geobacillus kaustophilus [TaxId:235909] [226400] (6 PDB entries)
1. Domains for 4dqp:
  1. Domain d4dqpa2: 4dqp A:469-876 [219947]
    Other proteins in same PDB: d4dqpa1, d4dqpd1
    automated match to d2hhva2
    protein/DNA complex; complexed with dct, mg, so4
  2. Domain d4dqpd2: 4dqp D:469-876 [219949]
    Other proteins in same PDB: d4dqpa1, d4dqpd1
    automated match to d2hhva2
    protein/DNA complex; complexed with dct, mg, so4
2. Domains for 4dqq:
  1. Domain d4dqqa2: 4dqq A:469-876 [219951]
    Other proteins in same PDB: d4dqqa1, d4dqqd1
    automated match to d2hhva2
    protein/DNA complex; complexed with ctp, mes, mg, mpd, so4
  2. Domain d4dqqd2: 4dqq D:469-876 [219953]
    Other proteins in same PDB: d4dqqa1, d4dqqd1
    automated match to d2hhva2
    protein/DNA complex; complexed with ctp, mes, mg, mpd, so4
3. Domains for 4dqr:
  1. Domain d4dqra2: 4dqr A:469-876 [219955]
    Other proteins in same PDB: d4dqra1, d4dqrd1
    automated match to d2hhva2
    protein/DNA complex; complexed with ctp, mn, mpd, so4
  2. Domain d4dqrd2: 4dqr D:469-876 [219957]
    Other proteins in same PDB: d4dqra1, d4dqrd1
    automated match to d2hhva2
    protein/DNA complex; complexed with ctp, mn, mpd, so4
4. Domain for 4dqs:
  - Domain d4dqsa2: 4dqs A:469-876 [251534]
    Other proteins in same PDB: d4dqsa1
    automated match to d3tana2
    protein/DNA complex; complexed with ctp, so4
5. Domains for 4ds4:
  1. Domain d4ds4a2: 4ds4 A:469-876 [219991]
    Other proteins in same PDB: d4ds4a1, d4ds4d1
    automated match to d2hhva2
    protein/DNA complex; complexed with so4
  2. Domain d4ds4d2: 4ds4 D:469-876 [219993]
    Other proteins in same PDB: d4ds4a1, d4ds4d1
    automated match to d2hhva2
    protein/DNA complex; complexed with so4
6. Domains for 4ds5:
  1. Domain d4ds5a2: 4ds5 A:469-876 [219995]
    Other proteins in same PDB: d4ds5a1, d4ds5d1
    automated match to d2hhva2
    protein/DNA complex; complexed with so4
  2. Domain d4ds5d2: 4ds5 D:469-876 [219997]
    Other proteins in same PDB: d4ds5a1, d4ds5d1
    automated match to d2hhva2
    protein/DNA complex; complexed with so4
Geobacillus sp. [TaxId:129337] [233671] (4 PDB entries)
1. Domain for 3tan:
  - Domain d3tana2: 3tan A:469-876 [233672]
    Other proteins in same PDB: d3tana1
    automated match to d2hhva2
    protein/DNA complex; complexed with dcp, so4, suc
2. Domain for 3tap:
  - Domain d3tapa2: 3tap A:469-876 [233674]
    Other proteins in same PDB: d3tapa1
    automated match to d2hhva2
    protein/DNA complex; complexed with mg, so4, suc
3. Domain for 3taq:
  - Domain d3taqa2: 3taq A:469-876 [233676]
    Other proteins in same PDB: d3taqa1
    automated match to d2hhva2
    protein/DNA complex; complexed with mg, so4, suc
4. Domain for 3tar:
  - Domain d3tara2: 3tar A:469-876 [233678]
    Other proteins in same PDB: d3tara1
    automated match to d2hhva2
    protein/DNA complex; complexed with mg, so4, suc
Geobacillus stearothermophilus [TaxId:1422] [261825] (1 PDB entry)
- Domain for 4o0i:
  - Domain d4o0ia2: 4o0i A:469-876 [261826]
    Other proteins in same PDB: d4o0ia1, d4o0ia3
    automated match to d4dqqa2
    protein/DNA complex; complexed with gol, na, so4
Thermococcus gorgonarius [TaxId:71997] [225934] (3 PDB entries)
1. Domain for 2vwj:
  - Domain d2vwja2: 2vwj A:348-757 [153676]
    Other proteins in same PDB: d2vwja1
    automated match to d1tgoa2
    complexed with k
2. Domain for 2vwk:
  - Domain d2vwka2: 2vwk A:348-773 [153678]
    Other proteins in same PDB: d2vwka1
    automated match to d1tgoa2
    complexed with na, so4
3. Domain for 2xhb:
  - Domain d2xhba2: 2xhb A:348-757 [207253]
    Other proteins in same PDB: d2xhba1
    automated match to d1qqca2
    protein/DNA complex; complexed with na
Thermococcus kodakarensis [TaxId:69014] [226699] (1 PDB entry)
- Domain for 4k8z:
  - Domain d4k8za2: 4k8z A:348-756 [224215]
    Other proteins in same PDB: d4k8za1
    automated match to d1qqca2
    protein/DNA complex; complexed with edo, mg, nco
Thermus aquaticus [TaxId:271] [267868] (4 PDB entries)
1. Domain for 3po4:
  - Domain d3po4a2: 3po4 A:423-832 [265199]
    Other proteins in same PDB: d3po4a1
    automated match to d3rrha2
    protein/DNA complex; complexed with dds, gol, mg, na; mutant
2. Domain for 3po5:
  - Domain d3po5a2: 3po5 A:423-832 [265201]
    Other proteins in same PDB: d3po5a1
    automated match to d3rrha2
    protein/DNA complex; complexed with dds, gol, mg, pge; mutant
3. Domain for 4bwj:
  - Domain d4bwja2: 4bwj A:423-832 [265958]
    Other proteins in same PDB: d4bwja1
    automated match to d3rrha2
    protein/DNA complex; complexed with dct, mg; mutant
4. Domain for 4bwm:
  - Domain d4bwma2: 4bwm A:423-832 [265960]
    Other proteins in same PDB: d4bwma1
    automated match to d3rrha2
    protein/DNA complex; protein/RNA complex; complexed with cl, dct, fmt, mg; mutant

More info for Protein automated matches from e.8.1.1: DNA polymerase I

Timeline for Protein automated matches from e.8.1.1: DNA polymerase I:

Protein automated matches from e.8.1.1: DNA polymerase I first appeared in SCOPe 2.03
Protein automated matches from e.8.1.1: DNA polymerase I appears in SCOPe 2.05
Protein automated matches from e.8.1.1: DNA polymerase I appears in SCOPe 2.07
Protein automated matches from e.8.1.1: DNA polymerase I appears in the current release, SCOPe 2.08