1LV5
Crystal Structure of the Closed Conformation of Bacillus DNA Polymerase I Fragment Bound to DNA and dCTP
Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage
Chains | Domain Info | Class | Fold | Superfamily | Family | Domain | Species | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
E [auth A] | d1lv5a1 | Alpha and beta proteins (a/b) | Ribonuclease H-like motif | Ribonuclease H-like | DnaQ-like 3'-5' exonuclease | Exonuclease domain of prokaryotic DNA polymerase | (Geobacillus stearothermophilus ) [TaxId: 1422 ], | SCOPe (2.08) |
E [auth A] | d1lv5a2 | Multi-domain proteins (alpha and beta) | DNA/RNA polymerases | DNA/RNA polymerases | DNA polymerase I | DNA polymerase I (Klenow fragment) | (Geobacillus stearothermophilus ) [TaxId: 1422 ], | SCOPe (2.08) |
F [auth B] | d1lv5b1 | Alpha and beta proteins (a/b) | Ribonuclease H-like motif | Ribonuclease H-like | DnaQ-like 3'-5' exonuclease | Exonuclease domain of prokaryotic DNA polymerase | (Geobacillus stearothermophilus ) [TaxId: 1422 ], | SCOPe (2.08) |
F [auth B] | d1lv5b2 | Multi-domain proteins (alpha and beta) | DNA/RNA polymerases | DNA/RNA polymerases | DNA polymerase I | DNA polymerase I (Klenow fragment) | (Geobacillus stearothermophilus ) [TaxId: 1422 ], | SCOPe (2.08) |
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
E [auth A] | DNA_pol_A_2nd | e1lv5A1 | A: alpha arrays | X: helical bundle in Bacillus stearothermophilus-like DNA polymerase I (From Topology) | H: helical bundle in Bacillus stearothermophilus-like DNA polymerase I (From Topology) | T: helical bundle in Bacillus stearothermophilus-like DNA polymerase I | F: DNA_pol_A_2nd | ECOD (1.6) |
E [auth A] | DNA_pol_A_1st | e1lv5A2 | 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: DNA_pol_A_1st | ECOD (1.6) |
E [auth A] | DNA_pol_A_3rd | e1lv5A3 | 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: DNA_pol_A_3rd | ECOD (1.6) |
E [auth A] | DNA_pol_A_exo1_1 | e1lv5A4 | A: mixed a+b and a/b | X: Ribonuclease H-like | H: Ribonuclease H-like (From Topology) | T: Ribonuclease H-like | F: DNA_pol_A_exo1_1 | ECOD (1.6) |
F [auth B] | DNA_pol_A_2nd | e1lv5B1 | A: alpha arrays | X: helical bundle in Bacillus stearothermophilus-like DNA polymerase I (From Topology) | H: helical bundle in Bacillus stearothermophilus-like DNA polymerase I (From Topology) | T: helical bundle in Bacillus stearothermophilus-like DNA polymerase I | F: DNA_pol_A_2nd | ECOD (1.6) |
F [auth B] | DNA_pol_A_1st | e1lv5B2 | 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: DNA_pol_A_1st | ECOD (1.6) |
F [auth B] | DNA_pol_A_3rd | e1lv5B3 | 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: DNA_pol_A_3rd | ECOD (1.6) |
F [auth B] | DNA_pol_A_exo1_1 | e1lv5B4 | A: mixed a+b and a/b | X: Ribonuclease H-like | H: Ribonuclease H-like (From Topology) | T: Ribonuclease H-like | F: DNA_pol_A_exo1_1 | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
---|---|---|---|---|---|---|
E [auth A] | 3.30.420.10 | Alpha Beta | 2-Layer Sandwich | Nucleotidyltransferase | domain 5 | CATH (4.3.0) |
E [auth A] | 1.20.1060.10 | Mainly Alpha | Up-down Bundle | Taq DNA Polymerase | Chain T, domain 4 | CATH (4.3.0) |
E [auth A] | 3.30.70.370 | Alpha Beta | 2-Layer Sandwich | Alpha-Beta Plaits | CATH (4.3.0) | |
E [auth A] | 1.10.150.20 | Mainly Alpha | Orthogonal Bundle | DNA polymerase | domain 1 | CATH (4.3.0) |
F [auth B] | 3.30.420.10 | Alpha Beta | 2-Layer Sandwich | Nucleotidyltransferase | domain 5 | CATH (4.3.0) |
F [auth B] | 1.20.1060.10 | Mainly Alpha | Up-down Bundle | Taq DNA Polymerase | Chain T, domain 4 | CATH (4.3.0) |
F [auth B] | 3.30.70.370 | Alpha Beta | 2-Layer Sandwich | Alpha-Beta Plaits | CATH (4.3.0) | |
F [auth B] | 1.10.150.20 | Mainly Alpha | Orthogonal Bundle | DNA polymerase | domain 1 | CATH (4.3.0) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
E [auth A], F [auth B] | PF22619 | DNA polymerase I, ribonuclease H-like domain (DNA_polI_exo1) | DNA polymerase I, ribonuclease H-like domain | This domain is responsible for the 3'-5' exonuclease proofreading activity of E. coli DNA polymerase I (polI) and other related enzymes. It is one of the constituent domains of Klenow fragment. | Domain |
E [auth A], F [auth B] | PF00476 | DNA polymerase family A (DNA_pol_A) | DNA polymerase family A | - | Family |