Crystal Structure of the E. coli clamp loader bound to Primer-Template DNA and Psi Peptide
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
| Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
|---|---|---|---|---|---|
| E | SCOP2B Superfamily | Post-AAA+ oligomerization domain-like | 8038004 | 3000691 | SCOP2B (2022-06-29) |
| J | SCOP2B Superfamily | Post-AAA+ oligomerization domain-like | 8038004 | 3000691 | SCOP2B (2022-06-29) |
| B | SCOP2B Superfamily | Post-AAA+ oligomerization domain-like | 8034547 | 3000691 | SCOP2B (2022-06-29) |
| B | SCOP2B Superfamily | DNA polymerases epsilon, N-terminal domain (Dpoe2NT)-like | 8104152 | 3002834 | SCOP2B (2022-06-29) |
| B | SCOP2B Superfamily | RecA-like P-loop NTPases | 8034548 | 3002019 | SCOP2B (2022-06-29) |
| C | SCOP2B Superfamily | DNA polymerases epsilon, N-terminal domain (Dpoe2NT)-like | 8104152 | 3002834 | SCOP2B (2022-06-29) |
| C | SCOP2B Superfamily | Post-AAA+ oligomerization domain-like | 8034547 | 3000691 | SCOP2B (2022-06-29) |
| C | SCOP2B Superfamily | RecA-like P-loop NTPases | 8034548 | 3002019 | SCOP2B (2022-06-29) |
| D | SCOP2B Superfamily | DNA polymerases epsilon, N-terminal domain (Dpoe2NT)-like | 8104152 | 3002834 | SCOP2B (2022-06-29) |
| D | SCOP2B Superfamily | RecA-like P-loop NTPases | 8034548 | 3002019 | SCOP2B (2022-06-29) |
| D | SCOP2B Superfamily | Post-AAA+ oligomerization domain-like | 8034547 | 3000691 | SCOP2B (2022-06-29) |
| G | SCOP2B Superfamily | Post-AAA+ oligomerization domain-like | 8034547 | 3000691 | SCOP2B (2022-06-29) |
| G | SCOP2B Superfamily | RecA-like P-loop NTPases | 8034548 | 3002019 | SCOP2B (2022-06-29) |
| G | SCOP2B Superfamily | DNA polymerases epsilon, N-terminal domain (Dpoe2NT)-like | 8104152 | 3002834 | SCOP2B (2022-06-29) |
| H | SCOP2B Superfamily | RecA-like P-loop NTPases | 8034548 | 3002019 | SCOP2B (2022-06-29) |
| H | SCOP2B Superfamily | DNA polymerases epsilon, N-terminal domain (Dpoe2NT)-like | 8104152 | 3002834 | SCOP2B (2022-06-29) |
| H | SCOP2B Superfamily | Post-AAA+ oligomerization domain-like | 8034547 | 3000691 | SCOP2B (2022-06-29) |
| I | SCOP2B Superfamily | DNA polymerases epsilon, N-terminal domain (Dpoe2NT)-like | 8104152 | 3002834 | SCOP2B (2022-06-29) |
| I | SCOP2B Superfamily | RecA-like P-loop NTPases | 8034548 | 3002019 | SCOP2B (2022-06-29) |
| I | SCOP2B Superfamily | Post-AAA+ oligomerization domain-like | 8034547 | 3000691 | SCOP2B (2022-06-29) |
| A | SCOP2B Superfamily | RecA-like P-loop NTPases | 8034535 | 3002019 | SCOP2B (2022-06-29) |
| A | SCOP2B Superfamily | DNA polymerases epsilon, N-terminal domain (Dpoe2NT)-like | 8104157 | 3002834 | SCOP2B (2022-06-29) |
| A | SCOP2B Superfamily | Post-AAA+ oligomerization domain-like | 8034551 | 3000691 | SCOP2B (2022-06-29) |
| F | SCOP2B Superfamily | DNA polymerases epsilon, N-terminal domain (Dpoe2NT)-like | 8104157 | 3002834 | SCOP2B (2022-06-29) |
| F | SCOP2B Superfamily | Post-AAA+ oligomerization domain-like | 8034551 | 3000691 | SCOP2B (2022-06-29) |
| F | SCOP2B Superfamily | RecA-like P-loop NTPases | 8034535 | 3002019 | 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) |
|---|---|---|---|---|---|---|---|---|
| E | Notch | e3gliE1 | A: alpha bundles | X: Transmembrane heme-binding four-helical bundle | H: P-loop domains-related | T: P-loop containing nucleoside triphosphate hydrolases | F: Notch | ECOD (develop294) |
| E | Thaumatin | e3gliE4 | A: alpha bundles | X: Ntn/PP2C | H: Ntn | T: Penicillin acylase, catalytic domain | F: Thaumatin | ECOD (develop294) |
| J | Glyco_hydro_70 | e3gliJ2 | A: alpha bundles | X: Lipocalins/Streptavidin | H: SAM/DNA-glycosylase | T: SAM domain-like | F: Glyco_hydro_70 | ECOD (develop294) |
| B | Vps4_C,AAA_lid_3 | e3gliB4 | A: alpha bundles | X: Fusion glycoprotein F2 | H: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase | T: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase | F: Vps4_C,AAA_lid_3 | ECOD (develop294) |
| B | Thaumatin | e3gliB3 | A: alpha bundles | X: Ntn/PP2C | H: Ntn | T: Penicillin acylase, catalytic domain | F: Thaumatin | ECOD (develop294) |
| C | Vps4_C,AAA_lid_3 | e3gliC4 | A: alpha bundles | X: Fusion glycoprotein F2 | H: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase | T: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase | F: Vps4_C,AAA_lid_3 | ECOD (develop294) |
| C | Thaumatin | e3gliC3 | A: alpha bundles | X: Ntn/PP2C | H: Ntn | T: Penicillin acylase, catalytic domain | F: Thaumatin | ECOD (develop294) |
| D | Vps4_C,AAA_lid_3 | e3gliD4 | A: alpha bundles | X: Fusion glycoprotein F2 | H: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase | T: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase | F: Vps4_C,AAA_lid_3 | ECOD (develop294) |
| D | Thaumatin | e3gliD2 | A: alpha bundles | X: Ntn/PP2C | H: Ntn | T: Penicillin acylase, catalytic domain | F: Thaumatin | ECOD (develop294) |
| G | YonK | e3gliG3 | A: alpha bundles | X: DP domain | H: DP domain | T: DP domain | F: YonK | ECOD (develop294) |
| G | ABC_tran | e3gliG4 | A: alpha bundles | X: Thioredoxin-like | H: ClpP/crotonase | T: ClpP/crotonase | F: ABC_tran | ECOD (develop294) |
| G | Thaumatin | e3gliG5 | A: alpha bundles | X: Ntn/PP2C | H: Ntn | T: Penicillin acylase, catalytic domain | F: Thaumatin | ECOD (develop294) |
| H | Vps4_C,AAA_lid_3 | e3gliH4 | A: alpha bundles | X: Fusion glycoprotein F2 | H: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase | T: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase | F: Vps4_C,AAA_lid_3 | ECOD (develop294) |
| H | Thaumatin | e3gliH3 | A: alpha bundles | X: Ntn/PP2C | H: Ntn | T: Penicillin acylase, catalytic domain | F: Thaumatin | ECOD (develop294) |
| I | Vps4_C,AAA_lid_3 | e3gliI4 | A: alpha bundles | X: Fusion glycoprotein F2 | H: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase | T: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase | F: Vps4_C,AAA_lid_3 | ECOD (develop294) |
| I | Thaumatin | e3gliI3 | A: alpha bundles | X: Ntn/PP2C | H: Ntn | T: Penicillin acylase, catalytic domain | F: Thaumatin | ECOD (develop294) |
| A | Pectate_lyase_3 | e3gliA1 | A: alpha bundles | X: HTH | H: Nudix | T: Nudix | F: Pectate_lyase_3 | ECOD (develop294) |
| F | Pectate_lyase_3 | e3gliF1 | A: alpha bundles | X: HTH | H: Nudix | T: Nudix | F: Pectate_lyase_3 | ECOD (develop294) |
Domain Annotation: CATH CATH Database Homepage
Protein Family Annotation Pfam Database Homepage
| Chains | Accession | Name | Description | Comments | Source |
|---|---|---|---|---|---|
| PF09115 | DNA polymerase III, delta subunit, C terminal (DNApol3-delta_C) | DNA polymerase III, delta subunit, C terminal | Members of this family, which are predominantly found in prokaryotic DNA polymerase III, assume an alpha helical structure, with a core of five alpha helices, and an additional small helix. They are essential for the formation of the polymerase clamp ... | Domain | |
| PF13177 | DNA polymerase III, delta subunit (DNA_pol3_delta2) | DNA polymerase III, delta subunit | DNA polymerase III, delta subunit (EC 2.7.7.7) is required for, along with delta' subunit, the assembly of the processivity factor beta(2) onto primed DNA in the DNA polymerase III holoenzyme-catalysed reaction [1]. The delta subunit is also known as ... | Domain | |
| PF21500 | DNA polymerase III subunit delta', AAA+ ATPase lid domain (HolB_lid) | DNA polymerase III subunit delta', AAA+ ATPase lid domain | DNA polymerase III subunit delta' is part of the beta sliding clamp loading complex, which hydrolyses ATP to load the beta clamp onto primed DNA to form the DNA replication pre-initiation complex [1,2]. It consists of three domains, of which the N-te ... | Domain | |
| PF12169 | DNA polymerase III subunits gamma and tau domain III (DNA_pol3_gamma3) | DNA polymerase III subunits gamma and tau domain III | - | Family | |
| PF22608 | DNA polymerase III clamp loader subunit, ATPase lid domain (DNAX_ATPase_lid) | DNA polymerase III clamp loader subunit, ATPase lid domain | This entry represents the AAA+ ATPase lid domain of DNA polymerase III clamp loader subunit [1-4]. | Domain | |
| PF13177 | DNA polymerase III, delta subunit (DNA_pol3_delta2) | DNA polymerase III, delta subunit | DNA polymerase III, delta subunit (EC 2.7.7.7) is required for, along with delta' subunit, the assembly of the processivity factor beta(2) onto primed DNA in the DNA polymerase III holoenzyme-catalysed reaction [1]. The delta subunit is also known as ... | Domain | |
| PF06144 | DNA polymerase III, delta subunit (DNA_pol3_delta) | DNA polymerase III, delta subunit | DNA polymerase III, delta subunit (EC 2.7.7.7) is required for, along with delta' subunit, the assembly of the processivity factor beta(2) onto primed DNA in the DNA polymerase III holoenzyme-catalysed reaction [1]. The delta subunit is also known as ... | Domain | |
| PF14840 | Processivity clamp loader gamma complex DNA pol III C-term (DNA_pol3_delt_C) | Processivity clamp loader gamma complex DNA pol III C-term | - | Family |














