3K58
Crystal structure of E.coli Pol II-normal DNA-dTTP ternary complex
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
A | SCOP2B Superfamily | Ribonuclease H-like | 8039907 | 3000143 | SCOP2B (2022-06-29) |
A | SCOP2B Superfamily | Nucleotide cyclase/DNA polymerase palm domain-like | 8039908 | 3001272 | SCOP2B (2022-06-29) |
A | SCOP2B Superfamily | Nucleotide cyclase/DNA polymerase palm domain-like | 8039908 | 3001272 | SCOP2B (2022-06-29) |
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A | PF21474 | e3k58A7 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF21474 | ECOD (1.6) |
A | F_UNCLASSIFIED | e3k58A3 | A: alpha bundles | X: thumb domain in bacteriophage RB69-like DNA polymerase I (From Topology) | H: thumb domain in bacteriophage RB69-like DNA polymerase I (From Topology) | T: thumb domain in bacteriophage RB69-like DNA polymerase I | F: F_UNCLASSIFIED | ECOD (1.6) |
A | F_UNCLASSIFIED | e3k58A2 | A: alpha bundles | X: fingers domain in bacteriophage RB69-like DNA polymerase I (From Topology) | H: fingers domain in bacteriophage RB69-like DNA polymerase I (From Topology) | T: fingers domain in bacteriophage RB69-like DNA polymerase I | F: F_UNCLASSIFIED | ECOD (1.6) |
A | PF00136 | e3k58A1 | A: a+b two layers | X: Alpha-beta plaits | H: Adenylyl and guanylyl cyclase catalytic domain-like | T: Adenylyl and guanylyl cyclase catalytic domain-like | F: PF00136 | ECOD (1.6) |
A | PF22587 | e3k58A6 | A: a+b two layers | X: Alpha-beta plaits | H: Family B DNA polymerase insertion domain (From Topology) | T: Family B DNA polymerase insertion domain | F: PF22587 | ECOD (1.6) |
A | PF03104 | e3k58A5 | A: mixed a+b and a/b | X: Ribonuclease H-like | H: Ribonuclease H-like (From Topology) | T: Ribonuclease H-like | F: PF03104 | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
---|---|---|---|---|---|---|
A | 2.40.50.590 | Mainly Beta | Beta Barrel | OB fold (Dihydrolipoamide Acetyltransferase, E2P) | DNA polymerase B, N domain, beta-barrel | CATH (4.3.0) |
A | 3.30.70.2250 | Alpha Beta | 2-Layer Sandwich | Alpha-Beta Plaits | B family DNA polymerase, N domain, alpha/beta motif | CATH (4.3.0) |
A | 3.30.420.10 | Alpha Beta | 2-Layer Sandwich | Nucleotidyltransferase | domain 5 | CATH (4.3.0) |
A | 3.90.1600.10 | Alpha Beta | Alpha-Beta Complex | Palm domain of DNA polymerase | B family DNA polymerase, palm domain | CATH (4.3.0) |
A | 6.10.140.1130 | Special | Helix non-globular | Helix Hairpins | CATH (4.3.0) | |
A | 1.10.287.690 | Mainly Alpha | Orthogonal Bundle | Helix Hairpins | B family DNA polymerase, finger domain | CATH (4.3.0) |
A | 1.10.132.60 | Mainly Alpha | Orthogonal Bundle | Topoisomerase I | Chain A, domain 4 | CATH (4.3.0) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF21474 | DNA polymerase II, N-terminal (DNApolII_N) | DNA polymerase II, N-terminal | This is the N-terminal domain of bacterial DNA polymerase II. This entry represents the OB fold [1]. | Domain | |
PF22587 | DNA polymerase II, insertion domain (DNApolII_insertion) | DNA polymerase II, insertion domain | This is the insertion domain found in DNA polymerase II from E. coli, a member of family B of DNA polymerases [1]. | Domain | |
PF03104 | DNA polymerase family B, exonuclease domain (DNA_pol_B_exo1) | DNA polymerase family B, exonuclease domain | - | Family | |
PF00136 | DNA polymerase family B (DNA_pol_B) | DNA polymerase family B | - | Family | |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Chains | Accession | Name | Type |
---|---|---|---|
IPR036397 | Ribonuclease H superfamily | Homologous Superfamily | |
IPR006134 | DNA-directed DNA polymerase, family B, multifunctional domain | Domain | |
IPR006172 | DNA-directed DNA polymerase, family B | Family | |
IPR043502 | DNA/RNA polymerase superfamily | Homologous Superfamily | |
IPR006133 | DNA-directed DNA polymerase, family B, exonuclease domain | Domain | |
IPR050240 | DNA polymerase type-B | Family | |
IPR042087 | DNA polymerase family B, thumb domain | Homologous Superfamily | |
IPR017964 | DNA-directed DNA polymerase, family B, conserved site | Conserved Site | |
IPR012337 | Ribonuclease H-like superfamily | Homologous Superfamily | |
IPR023211 | DNA polymerase, palm domain superfamily | Homologous Superfamily |