3TAE | pdb_00003tae

5-hydroxycytosine paired with dAMP in RB69 gp43

External Resource: Annotation


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

ChainsDomain InfoClassFoldSuperfamilyFamilyDomainSpeciesProvenance Source (Version)
L [auth D]d3taed1 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]d3taed2 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]d3taec1 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]d3taec2 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]d3taeb1 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]d3taeb2 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)
I [auth A]d3taea1 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]d3taea2 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)
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)
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)
K [auth C]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)
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)
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)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
L [auth D]UCH_Ne3taeD4 A: alpha bundlesX: Lipocalins/StreptavidinH: Zn-dependent exopeptidasesT: Zn-dependent exopeptidasesF: UCH_NECOD (develop294)
L [auth D]SidM_Rab1-acte3taeD5 A: alpha bundlesX: DEATH domainH: Ten stranded beta/alpha barrelT: Ten stranded beta/alpha barrelF: SidM_Rab1-actECOD (develop294)
K [auth C]UCH_Ne3taeC4 A: alpha bundlesX: Lipocalins/StreptavidinH: Zn-dependent exopeptidasesT: Zn-dependent exopeptidasesF: UCH_NECOD (develop294)
K [auth C]SidM_Rab1-acte3taeC5 A: alpha bundlesX: DEATH domainH: Ten stranded beta/alpha barrelT: Ten stranded beta/alpha barrelF: SidM_Rab1-actECOD (develop294)
J [auth B]UCH_Ne3taeB4 A: alpha bundlesX: Lipocalins/StreptavidinH: Zn-dependent exopeptidasesT: Zn-dependent exopeptidasesF: UCH_NECOD (develop294)
J [auth B]SidM_Rab1-acte3taeB5 A: alpha bundlesX: DEATH domainH: Ten stranded beta/alpha barrelT: Ten stranded beta/alpha barrelF: SidM_Rab1-actECOD (develop294)
I [auth A]UCH_Ne3taeA4 A: alpha bundlesX: Lipocalins/StreptavidinH: Zn-dependent exopeptidasesT: Zn-dependent exopeptidasesF: UCH_NECOD (develop294)
I [auth A]SidM_Rab1-acte3taeA5 A: alpha bundlesX: DEATH domainH: Ten stranded beta/alpha barrelT: Ten stranded beta/alpha barrelF: SidM_Rab1-actECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
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)
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)
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)
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)

Protein Family Annotation Pfam Database Homepage

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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
I [auth A],
J [auth B],
K [auth C],
L [auth D]		DNA polymerase -
B [auth F],
D [auth J],
F [auth H],
H [auth L]		DNA (5'-D(*GP*CP*GP*GP*CP*TP*GP*TP*CP*AP*TP*AP*CP*CP*A)-3')---
A [auth E],
C [auth I],
E [auth G],
G [auth K]		DNA (5'-D(*CP*CP*(5OC)P*GP*GP*TP*AP*TP*GP*AP*CP*AP*GP*CP*CP*GP*CP*G)-3')---

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
I [auth A],
J [auth B],
K [auth C],
L [auth D]		IPR036397Ribonuclease H superfamilyHomologous Superfamily
I [auth A],
J [auth B],
K [auth C],
L [auth D]		IPR006134DNA-directed DNA polymerase, family B, multifunctional domainDomain
I [auth A],
J [auth B],
K [auth C],
L [auth D]		IPR034749DNA-directed DNA polymerase T4 typeFamily
I [auth A],
J [auth B],
K [auth C],
L [auth D]		IPR006172DNA-directed DNA polymerase, family BFamily
I [auth A],
J [auth B],
K [auth C],
L [auth D]		IPR043502DNA/RNA polymerase superfamilyHomologous Superfamily
I [auth A],
J [auth B],
K [auth C],
L [auth D]		IPR006133DNA-directed DNA polymerase, family B, exonuclease domainDomain
I [auth A],
J [auth B],
K [auth C],
L [auth D]		IPR050240DNA polymerase type-BFamily
I [auth A],
J [auth B],
K [auth C],
L [auth D]		IPR017964DNA-directed DNA polymerase, family B, conserved siteConserved Site
I [auth A],
J [auth B],
K [auth C],
L [auth D]		IPR012337Ribonuclease H-like superfamilyHomologous Superfamily
I [auth A],
J [auth B],
K [auth C],
L [auth D]		IPR023211DNA polymerase, palm domain superfamilyHomologous Superfamily