5FKW
cryo-EM structure of the E. coli replicative DNA polymerase complex bound to DNA (DNA polymerase III alpha, beta, epsilon)
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
B | SCOP2B Superfamily | DNA clamp | 8038081 | 3000780 | SCOP2B (2022-06-29) |
B | SCOP2B Superfamily | DNA clamp | 8038082 | 3000780 | SCOP2B (2022-06-29) |
B | SCOP2B Superfamily | DNA clamp | 8038076 | 3000780 | SCOP2B (2022-06-29) |
C | SCOP2B Superfamily | DNA clamp | 8038076 | 3000780 | SCOP2B (2022-06-29) |
C | SCOP2B Superfamily | DNA clamp | 8038082 | 3000780 | SCOP2B (2022-06-29) |
C | SCOP2B Superfamily | DNA clamp | 8038081 | 3000780 | SCOP2B (2022-06-29) |
D | SCOP2B Superfamily | Ribonuclease H-like | 8042074 | 3000143 | 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 | PF14579 | e5fkwA3 | A: alpha arrays | X: HhH/H2TH | H: SAM/DNA-glycosylase | T: SAM domain-like | F: PF14579 | ECOD (1.6) |
A | PF17657 | e5fkwA4 | A: alpha arrays | X: DNA polymerase III finger domain (From Topology) | H: DNA polymerase III finger domain (From Topology) | T: DNA polymerase III finger domain | F: PF17657 | ECOD (1.6) |
A | PF07733 | e5fkwA1 | A: a+b three layers | X: Nucleotidyltransferase-like | H: Nucleotidyltransferase (From Topology) | T: Nucleotidyltransferase | F: PF07733 | ECOD (1.6) |
A | PF02811 | e5fkwA2 | A: a/b barrels | X: TIM beta/alpha-barrel | H: TIM barrels (From Topology) | T: TIM barrels | F: PF02811 | ECOD (1.6) |
B | PF00712 | e5fkwB2 | A: a+b two layers | X: DNA clamp (From Topology) | H: DNA clamp (From Topology) | T: DNA clamp | F: PF00712 | ECOD (1.6) |
B | PF02767 | e5fkwB3 | A: a+b two layers | X: DNA clamp (From Topology) | H: DNA clamp (From Topology) | T: DNA clamp | F: PF02767 | ECOD (1.6) |
B | PF02768 | e5fkwB1 | A: a+b two layers | X: DNA clamp (From Topology) | H: DNA clamp (From Topology) | T: DNA clamp | F: PF02768 | ECOD (1.6) |
C | PF00712 | e5fkwC3 | A: a+b two layers | X: DNA clamp (From Topology) | H: DNA clamp (From Topology) | T: DNA clamp | F: PF00712 | ECOD (1.6) |
C | PF02767 | e5fkwC2 | A: a+b two layers | X: DNA clamp (From Topology) | H: DNA clamp (From Topology) | T: DNA clamp | F: PF02767 | ECOD (1.6) |
C | PF02768 | e5fkwC1 | A: a+b two layers | X: DNA clamp (From Topology) | H: DNA clamp (From Topology) | T: DNA clamp | F: PF02768 | ECOD (1.6) |
D | PF00929 | e5fkwD1 | A: mixed a+b and a/b | X: Ribonuclease H-like | H: Ribonuclease H-like (From Topology) | T: Ribonuclease H-like | F: PF00929 | ECOD (1.6) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF02811 | PHP domain (PHP) | PHP domain | - | Family | |
PF07733 | Bacterial DNA polymerase III alpha NTPase domain (DNA_pol3_alpha) | Bacterial DNA polymerase III alpha NTPase domain | - | Domain | |
PF14579 | Helix-hairpin-helix motif (HHH_6) | Helix-hairpin-helix motif | The HHH domain is a short DNA-binding domain [1]. | Domain | |
PF17657 | Bacterial DNA polymerase III alpha subunit finger domain (DNA_pol3_finger) | Bacterial DNA polymerase III alpha subunit finger domain | - | Domain | |
PF02768 | DNA polymerase III beta subunit, C-terminal domain (DNA_pol3_beta_3) | DNA polymerase III beta subunit, C-terminal domain | A dimer of the beta subunit of DNA polymerase beta forms a ring which encircles duplex DNA. Each monomer contains three domains of identical topology and DNA clamp fold. | Domain | |
PF02767 | DNA polymerase III beta subunit, central domain (DNA_pol3_beta_2) | DNA polymerase III beta subunit, central domain | A dimer of the beta subunit of DNA polymerase beta forms a ring which encircles duplex DNA. Each monomer contains three domains of identical topology and DNA clamp fold. | Domain | |
PF00712 | DNA polymerase III beta subunit, N-terminal domain (DNA_pol3_beta) | DNA polymerase III beta subunit, N-terminal domain | A dimer of the beta subunit of DNA polymerase beta forms a ring which encircles duplex DNA. Each monomer contains three domains of identical topology and DNA clamp fold. | Domain | |
PF00929 | Exonuclease (RNase_T) | Exonuclease | - | Family | |