Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

ChainsDomain InfoClassFoldSuperfamilyFamilyDomainSpeciesProvenance Source (Version)
I [auth A]d1q9xa1 Alpha and beta proteins (a/b) Ribonuclease H-like motif Ribonuclease H-like DnaQ-like 3'-5' exonuclease Exonuclease domain of family B DNA polymerases (Escherichia phage RB69 ) [TaxId: 12353 ], SCOPe (2.08)
I [auth A]d1q9xa2 Multi-domain proteins (alpha and beta) DNA/RNA polymerases DNA/RNA polymerases DNA polymerase I Family B DNA polymerase (Escherichia phage RB69 ) [TaxId: 12353 ], SCOPe (2.08)
J [auth B]d1q9xb1 Alpha and beta proteins (a/b) Ribonuclease H-like motif Ribonuclease H-like DnaQ-like 3'-5' exonuclease Exonuclease domain of family B DNA polymerases (Escherichia phage RB69 ) [TaxId: 12353 ], SCOPe (2.08)
J [auth B]d1q9xb2 Multi-domain proteins (alpha and beta) DNA/RNA polymerases DNA/RNA polymerases DNA polymerase I Family B DNA polymerase (Escherichia phage RB69 ) [TaxId: 12353 ], SCOPe (2.08)
K [auth C]d1q9xc1 Alpha and beta proteins (a/b) Ribonuclease H-like motif Ribonuclease H-like DnaQ-like 3'-5' exonuclease Exonuclease domain of family B DNA polymerases (Escherichia phage RB69 ) [TaxId: 12353 ], SCOPe (2.08)
K [auth C]d1q9xc2 Multi-domain proteins (alpha and beta) DNA/RNA polymerases DNA/RNA polymerases DNA polymerase I Family B DNA polymerase (Escherichia phage RB69 ) [TaxId: 12353 ], SCOPe (2.08)
L [auth D]d1q9xd1 Alpha and beta proteins (a/b) Ribonuclease H-like motif Ribonuclease H-like DnaQ-like 3'-5' exonuclease Exonuclease domain of family B DNA polymerases (Escherichia phage RB69 ) [TaxId: 12353 ], SCOPe (2.08)
L [auth D]d1q9xd2 Multi-domain proteins (alpha and beta) DNA/RNA polymerases DNA/RNA polymerases DNA polymerase I Family B DNA polymerase (Escherichia phage RB69 ) [TaxId: 12353 ], SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
I [auth A]SCOP2B SuperfamilyNucleotide cyclase/DNA polymerase palm domain-like 8033949 3001272 SCOP2B (2022-06-29)
I [auth A]SCOP2B SuperfamilyRibonuclease H-like 8033947 3000143 SCOP2B (2022-06-29)
I [auth A]SCOP2B SuperfamilyNucleotide cyclase/DNA polymerase palm domain-like 8033949 3001272 SCOP2B (2022-06-29)
J [auth B]SCOP2B SuperfamilyNucleotide cyclase/DNA polymerase palm domain-like 8033949 3001272 SCOP2B (2022-06-29)
J [auth B]SCOP2B SuperfamilyNucleotide cyclase/DNA polymerase palm domain-like 8033949 3001272 SCOP2B (2022-06-29)
J [auth B]SCOP2B SuperfamilyRibonuclease H-like 8033947 3000143 SCOP2B (2022-06-29)
K [auth C]SCOP2B SuperfamilyNucleotide cyclase/DNA polymerase palm domain-like 8033949 3001272 SCOP2B (2022-06-29)
K [auth C]SCOP2B SuperfamilyRibonuclease H-like 8033947 3000143 SCOP2B (2022-06-29)
K [auth C]SCOP2B SuperfamilyNucleotide cyclase/DNA polymerase palm domain-like 8033949 3001272 SCOP2B (2022-06-29)
L [auth D]SCOP2B SuperfamilyRibonuclease H-like 8033947 3000143 SCOP2B (2022-06-29)
L [auth D]SCOP2B SuperfamilyNucleotide cyclase/DNA polymerase palm domain-like 8033949 3001272 SCOP2B (2022-06-29)
L [auth D]SCOP2B SuperfamilyNucleotide cyclase/DNA polymerase palm domain-like 8033949 3001272 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
I [auth A]43_2nde1q9xA2 A: alpha bundlesX: 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 IF: 43_2ndECOD (1.6)
I [auth A]43_1ste1q9xA1 A: alpha bundlesX: 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 IF: 43_1stECOD (1.6)
I [auth A]DNA_pol_B_1ste1q9xA3 A: a+b two layersX: Alpha-beta plaitsH: Adenylyl and guanylyl cyclase catalytic domain-likeT: Adenylyl and guanylyl cyclase catalytic domain-likeF: DNA_pol_B_1stECOD (1.6)
I [auth A]DNA_pol_B_exo1_3rde1q9xA4 A: mixed a+b and a/bX: Ribonuclease H-likeH: Ribonuclease H-like (From Topology)T: Ribonuclease H-likeF: DNA_pol_B_exo1_3rdECOD (1.6)
J [auth B]43_2nde1q9xB2 A: alpha bundlesX: 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 IF: 43_2ndECOD (1.6)
J [auth B]43_1ste1q9xB1 A: alpha bundlesX: 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 IF: 43_1stECOD (1.6)
J [auth B]DNA_pol_B_1ste1q9xB3 A: a+b two layersX: Alpha-beta plaitsH: Adenylyl and guanylyl cyclase catalytic domain-likeT: Adenylyl and guanylyl cyclase catalytic domain-likeF: DNA_pol_B_1stECOD (1.6)
J [auth B]DNA_pol_B_exo1_3rde1q9xB4 A: mixed a+b and a/bX: Ribonuclease H-likeH: Ribonuclease H-like (From Topology)T: Ribonuclease H-likeF: DNA_pol_B_exo1_3rdECOD (1.6)
K [auth C]43_2nde1q9xC2 A: alpha bundlesX: 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 IF: 43_2ndECOD (1.6)
K [auth C]43_1ste1q9xC1 A: alpha bundlesX: 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 IF: 43_1stECOD (1.6)
K [auth C]DNA_pol_B_1ste1q9xC3 A: a+b two layersX: Alpha-beta plaitsH: Adenylyl and guanylyl cyclase catalytic domain-likeT: Adenylyl and guanylyl cyclase catalytic domain-likeF: DNA_pol_B_1stECOD (1.6)
K [auth C]DNA_pol_B_exo1_3rde1q9xC4 A: mixed a+b and a/bX: Ribonuclease H-likeH: Ribonuclease H-like (From Topology)T: Ribonuclease H-likeF: DNA_pol_B_exo1_3rdECOD (1.6)
L [auth D]43_2nde1q9xD2 A: alpha bundlesX: 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 IF: 43_2ndECOD (1.6)
L [auth D]43_1ste1q9xD1 A: alpha bundlesX: 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 IF: 43_1stECOD (1.6)
L [auth D]DNA_pol_B_1ste1q9xD3 A: a+b two layersX: Alpha-beta plaitsH: Adenylyl and guanylyl cyclase catalytic domain-likeT: Adenylyl and guanylyl cyclase catalytic domain-likeF: DNA_pol_B_1stECOD (1.6)
L [auth D]DNA_pol_B_exo1_3rde1q9xD4 A: mixed a+b and a/bX: Ribonuclease H-likeH: Ribonuclease H-like (From Topology)T: Ribonuclease H-likeF: DNA_pol_B_exo1_3rdECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
I [auth A]3.30.342.10 Alpha Beta 2-Layer Sandwich DNA Polymerase Chain A, domain 1CATH (4.3.0)
I [auth A]3.30.420.10 Alpha Beta 2-Layer Sandwich Nucleotidyltransferase domain 5CATH (4.3.0)
I [auth A]3.90.1600.10 Alpha Beta Alpha-Beta Complex Palm domain of DNA polymerase B family DNA polymerase, palm domainCATH (4.3.0)
I [auth A]1.10.287.690 Mainly Alpha Orthogonal Bundle Helix Hairpins B family DNA polymerase, finger domainCATH (4.3.0)
I [auth A]1.20.1280.300 Mainly Alpha Up-down Bundle Monooxygenase CATH (4.3.0)
I [auth A]3.40.1820.10 Alpha Beta 3-Layer(aba) Sandwich Ribonuclease H-like motif DnaQ-like 3'-5' exonucleaseCATH (4.3.0)
J [auth B]3.30.342.10 Alpha Beta 2-Layer Sandwich DNA Polymerase Chain A, domain 1CATH (4.3.0)
J [auth B]3.30.420.10 Alpha Beta 2-Layer Sandwich Nucleotidyltransferase domain 5CATH (4.3.0)
J [auth B]3.90.1600.10 Alpha Beta Alpha-Beta Complex Palm domain of DNA polymerase B family DNA polymerase, palm domainCATH (4.3.0)
J [auth B]1.10.287.690 Mainly Alpha Orthogonal Bundle Helix Hairpins B family DNA polymerase, finger domainCATH (4.3.0)
J [auth B]1.20.1280.300 Mainly Alpha Up-down Bundle Monooxygenase CATH (4.3.0)
J [auth B]3.40.1820.10 Alpha Beta 3-Layer(aba) Sandwich Ribonuclease H-like motif DnaQ-like 3'-5' exonucleaseCATH (4.3.0)
K [auth C]3.30.342.10 Alpha Beta 2-Layer Sandwich DNA Polymerase Chain A, domain 1CATH (4.3.0)
K [auth C]3.30.420.10 Alpha Beta 2-Layer Sandwich Nucleotidyltransferase domain 5CATH (4.3.0)
K [auth C]3.90.1600.10 Alpha Beta Alpha-Beta Complex Palm domain of DNA polymerase B family DNA polymerase, palm domainCATH (4.3.0)
K [auth C]1.10.287.690 Mainly Alpha Orthogonal Bundle Helix Hairpins B family DNA polymerase, finger domainCATH (4.3.0)
K [auth C]1.20.1280.300 Mainly Alpha Up-down Bundle Monooxygenase CATH (4.3.0)
K [auth C]3.40.1820.10 Alpha Beta 3-Layer(aba) Sandwich Ribonuclease H-like motif DnaQ-like 3'-5' exonucleaseCATH (4.3.0)
L [auth D]3.30.342.10 Alpha Beta 2-Layer Sandwich DNA Polymerase Chain A, domain 1CATH (4.3.0)
L [auth D]3.30.420.10 Alpha Beta 2-Layer Sandwich Nucleotidyltransferase domain 5CATH (4.3.0)
L [auth D]3.90.1600.10 Alpha Beta Alpha-Beta Complex Palm domain of DNA polymerase B family DNA polymerase, palm domainCATH (4.3.0)
L [auth D]1.10.287.690 Mainly Alpha Orthogonal Bundle Helix Hairpins B family DNA polymerase, finger domainCATH (4.3.0)
L [auth D]1.20.1280.300 Mainly Alpha Up-down Bundle Monooxygenase CATH (4.3.0)
L [auth D]3.40.1820.10 Alpha Beta 3-Layer(aba) Sandwich Ribonuclease H-like motif DnaQ-like 3'-5' exonucleaseCATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
I [auth A],
J [auth B],
K [auth C],
L [auth D]
PF00136DNA polymerase family B (DNA_pol_B)DNA polymerase family B- Family
I [auth A],
J [auth B],
K [auth C],
L [auth D]
PF03104DNA polymerase family B, exonuclease domain (DNA_pol_B_exo1)DNA polymerase family B, exonuclease domain- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A [auth E],
C [auth F],
E [auth G],
G [auth H]
5'-GCGGACTGCTTAC(dideoxycytidine)-3'---
B [auth I],
D [auth J],
F [auth K],
H [auth L]
5'-AC(tetrahydrofuran)GGTAAGCAGTCCGCGG-3'---
I [auth A],
J [auth B],
K [auth C],
L [auth D]
DNA polymerase -