1K1Q

Crystal Structure of a DinB Family Error Prone DNA Polymerase from Sulfolobus solfataricus

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1k1qa1	Alpha and beta proteins (a+b)	Lesion bypass DNA polymerase (Y-family), little finger domain	Lesion bypass DNA polymerase (Y-family), little finger domain	Lesion bypass DNA polymerase (Y-family), little finger domain	DinB homolog (DBH)	(Saccharolobus solfataricus ) [TaxId: 2287 ],	SCOPe (2.08)
A	d1k1qa2	Multi-domain proteins (alpha and beta)	DNA/RNA polymerases	DNA/RNA polymerases	Lesion bypass DNA polymerase (Y-family), catalytic domain	DinB homolog (DBH)	(Saccharolobus solfataricus ) [TaxId: 2287 ],	SCOPe (2.08)
B	d1k1qb1	Alpha and beta proteins (a+b)	Lesion bypass DNA polymerase (Y-family), little finger domain	Lesion bypass DNA polymerase (Y-family), little finger domain	Lesion bypass DNA polymerase (Y-family), little finger domain	DinB homolog (DBH)	(Saccharolobus solfataricus ) [TaxId: 2287 ],	SCOPe (2.08)
B	d1k1qb2	Multi-domain proteins (alpha and beta)	DNA/RNA polymerases	DNA/RNA polymerases	Lesion bypass DNA polymerase (Y-family), catalytic domain	DinB homolog (DBH)	(Saccharolobus solfataricus ) [TaxId: 2287 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Nucleotide cyclase/DNA polymerase palm domain-like	8034107	3001272	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Lesion bypass DNA polymerase (Y-family) little finger domain	8035595	3000579	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Nucleotide cyclase/DNA polymerase palm domain-like	8034107	3001272	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Lesion bypass DNA polymerase (Y-family) little finger domain	8035595	3000579	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Nucleotide cyclase/DNA polymerase palm domain-like	8034107	3001272	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Nucleotide cyclase/DNA polymerase palm domain-like	8034107	3001272	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Ta1206-like	8055755	3001431	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	PF14520	e1k1qA7	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: PF14520	ECOD (1.6)
A	F_UNCLASSIFIED	e1k1qA6	A: a+b two layers	X: Reverse ferredoxin	H: Lesion bypass DNA polymerase (Y-family), little finger domain (From Topology)	T: Lesion bypass DNA polymerase (Y-family), little finger domain	F: F_UNCLASSIFIED	ECOD (1.6)
A	PF00817	e1k1qA5	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: PF00817	ECOD (1.6)
A	PF00817	e1k1qA8	A: a+b three layers	X: Hypothetical protein Ta1206-like (From Topology)	H: Hypothetical protein Ta1206-like (From Topology)	T: Hypothetical protein Ta1206-like	F: PF00817	ECOD (1.6)
B	PF14520	e1k1qB1	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: PF14520	ECOD (1.6)
B	F_UNCLASSIFIED	e1k1qB2	A: a+b two layers	X: Reverse ferredoxin	H: Lesion bypass DNA polymerase (Y-family), little finger domain (From Topology)	T: Lesion bypass DNA polymerase (Y-family), little finger domain	F: F_UNCLASSIFIED	ECOD (1.6)
B	PF00817	e1k1qB3	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: PF00817	ECOD (1.6)
B	PF00817	e1k1qB4	A: a+b three layers	X: Hypothetical protein Ta1206-like (From Topology)	H: Hypothetical protein Ta1206-like (From Topology)	T: Hypothetical protein Ta1206-like	F: PF00817	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.1170.60	Alpha Beta	3-Layer(aba) Sandwich	MutS, DNA mismatch repair protein, domain I		CATH (4.3.0)
A	3.30.70.270	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Reverse transcriptase/Diguanylate cyclase domain	CATH (4.3.0)
A	1.10.150.20	Mainly Alpha	Orthogonal Bundle	DNA polymerase	domain 1	CATH (4.3.0)
A	3.30.1490.100	Alpha Beta	2-Layer Sandwich	Dna Ligase	domain 1	CATH (4.3.0)
B	3.40.1170.60	Alpha Beta	3-Layer(aba) Sandwich	MutS, DNA mismatch repair protein, domain I		CATH (4.3.0)
B	3.30.70.270	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Reverse transcriptase/Diguanylate cyclase domain	CATH (4.3.0)
B	1.10.150.20	Mainly Alpha	Orthogonal Bundle	DNA polymerase	domain 1	CATH (4.3.0)
B	3.30.1490.100	Alpha Beta	2-Layer Sandwich	Dna Ligase	domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00817	impB/mucB/samB family (IMS)	impB/mucB/samB family	-	Family
A, B	PF11798	IMS family HHH motif (IMS_HHH)	IMS family HHH motif	-	Motif

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	DBH protein	catalytic activity, acting on DNA DNA-directed DNA polymerase activity DNA polymerase activity catalytic activity, acting on a nucleic acid transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding catalytic activity, acting on DNA DNA-directed DNA polymerase activity DNA polymerase activity catalytic activity, acting on a nucleic acid transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding DNA binding organic cyclic compound binding damaged DNA binding nucleic acid binding	cellular response to stimulus response to stimulus primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process cellular response to stress DNA damage response response to stress metabolic process cellular process macromolecule metabolic process cellular response to stimulus response to stimulus primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process cellular response to stress DNA damage response response to stress metabolic process cellular process macromolecule metabolic process DNA repair DNA-templated DNA replication DNA replication	intracellular anatomical structure cytoplasm cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR022880	DNA polymerase IV	Family
A, B	IPR001126	UmuC domain	Domain
A, B	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
A, B	IPR036775	DNA polymerase, Y-family, little finger domain superfamily	Homologous Superfamily
A, B	IPR024728	DNA polymerase type-Y, HhH motif	Conserved Site
A, B	IPR043128	Reverse transcriptase/Diguanylate cyclase domain	Homologous Superfamily

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.