2BJ8 | pdb_00002bj8

NIKR IN CLOSED CONFORMATION AND NICKEL BOUND TO HIGH and LOW-AFFINITY SITES

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
B	d2bj8b1	All alpha proteins	Ribbon-helix-helix	Ribbon-helix-helix	CopG-like	Nickel responsive regulator NikR, N-terminal domain	(Pyrococcus horikoshii OT3 ) [TaxId: 70601 ],	SCOPe (2.08)
B	d2bj8b2	Alpha and beta proteins (a+b)	Ferredoxin-like	ACT-like	Nickel responsive regulator NikR, C-terminal domain	Nickel responsive regulator NikR, C-terminal domain	(Pyrococcus horikoshii OT3 ) [TaxId: 70601 ],	SCOPe (2.08)
A	d2bj8a1	All alpha proteins	Ribbon-helix-helix	Ribbon-helix-helix	CopG-like	Nickel responsive regulator NikR, N-terminal domain	(Pyrococcus horikoshii OT3 ) [TaxId: 70601 ],	SCOPe (2.08)
A	d2bj8a2	Alpha and beta proteins (a+b)	Ferredoxin-like	ACT-like	Nickel responsive regulator NikR, C-terminal domain	Nickel responsive regulator NikR, C-terminal domain	(Pyrococcus horikoshii OT3 ) [TaxId: 70601 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	Ribbon-helix-helix	8038166	3000295	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	ACT-like	8038169	3000006	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Ribbon-helix-helix	8038166	3000295	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	ACT-like	8038169	3000006	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)
B	PutA_1st	e2bj8B1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: YozE-like	T: Ribbon-helix-helix	F: PutA_1st	ECOD (v294.1)
B	ACT_6	e2bj8B2	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: Rpp14/Pop5-like	T: Rpp14/Pop5-like	F: ACT_6	ECOD (v294.1)
A	PutA_1st	e2bj8A1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: YozE-like	T: Ribbon-helix-helix	F: PutA_1st	ECOD (v294.1)
A	ACT_6	e2bj8A2	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: Rpp14/Pop5-like	T: Rpp14/Pop5-like	F: ACT_6	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	1.10.1220.10	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant	Met repressor-like	CATH (4.3.0)
B	3.30.70.1150	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	ACT-like. Chain A, domain 2	CATH (4.3.0)
A	1.10.1220.10	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant	Met repressor-like	CATH (4.3.0)
A	3.30.70.1150	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	ACT-like. Chain A, domain 2	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	NICKEL RESPONSIVE REGULATOR	DNA binding binding nucleic acid binding cation binding transition metal ion binding ion binding nickel cation binding metal ion binding small molecule binding transcription regulator activity DNA-binding transcription factor activity	response to stimulus response to metal ion response to chemical response to nickel cation	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR013321	Arc-type ribbon-helix-helix	Homologous Superfamily
A, B	IPR022988	Nickel-responsive transcriptional regulator NikR	Family
A, B	IPR010985	Ribbon-helix-helix	Homologous Superfamily
A, B	IPR027271	Acetolactate synthase/Transcription factor NikR, C-terminal	Homologous Superfamily
A, B	IPR045865	ACT-like domain	Homologous Superfamily
A, B	IPR002145	Ribbon-helix-helix protein, CopG	Domain
A, B	IPR014864	Transcription factor, NikR, nickel binding C-terminal	Domain
A, B	IPR050192	Nickel-responsive transcriptional regulator	Family

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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.