1R8J | pdb_00001r8j

Crystal Structure of Circadian Clock Protein KaiA from Synechococcus elongatus

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)
B	d1r8jb1	All alpha proteins	KaiA/RbsU domain	KaiA/RbsU domain	Circadian clock protein KaiA, C-terminal domain	Circadian clock protein KaiA, C-terminal domain	(Synechococcus elongatus PCC 7942 = FACHB-805 ) [TaxId: 1140 ],	SCOPe (2.08)
B	d1r8jb2	Alpha and beta proteins (a/b)	Flavodoxin-like	CheY-like	N-terminal domain of the circadian clock protein KaiA	N-terminal domain of the circadian clock protein KaiA	(Synechococcus elongatus PCC 7942 = FACHB-805 ) [TaxId: 1140 ],	SCOPe (2.08)
B	d1r8jb3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Synechococcus elongatus PCC 7942 = FACHB-805 ) [TaxId: 1140 ],	SCOPe (2.08)
A	d1r8ja1	All alpha proteins	KaiA/RbsU domain	KaiA/RbsU domain	Circadian clock protein KaiA, C-terminal domain	Circadian clock protein KaiA, C-terminal domain	(Synechococcus elongatus PCC 7942 = FACHB-805 ) [TaxId: 1140 ],	SCOPe (2.08)
A	d1r8ja2	Alpha and beta proteins (a/b)	Flavodoxin-like	CheY-like	N-terminal domain of the circadian clock protein KaiA	N-terminal domain of the circadian clock protein KaiA	(Synechococcus elongatus PCC 7942 = FACHB-805 ) [TaxId: 1140 ],	SCOPe (2.08)
A	d1r8ja3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Synechococcus elongatus PCC 7942 = FACHB-805 ) [TaxId: 1140 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	CheY-like	8038789	3001156	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	KaiA/RbsU domain	8038787	3000938	SCOP2B (2022-06-29)
A	SCOP2 Family	Circadian clock protein KaiA, C-terminal domain	8026408	4000668	SCOP2 (2022-06-29)
A	SCOP2 Family	N-terminal domain of the circadian clock protein KaiA	8026410	4002938	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	KaiA/RbsU domain	8038787	3000938	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	CheY-like	8038789	3001156	SCOP2 (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	B12-binding	e1r8jB2	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: B12-binding	ECOD (v294.1)
B	Pyrid_oxidase_2	e1r8jB1	A: a/b three-layered sandwiches	X: PBZ domain	H: PBZ domain	T: PBZ domain	F: Pyrid_oxidase_2	ECOD (v294.1)
A	KaiA_N	e1r8jA2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: CheY-like	F: KaiA_N	ECOD (v294.1)
A	Pyrid_oxidase_2	e1r8jA3	A: a/b three-layered sandwiches	X: PBZ domain	H: PBZ domain	T: PBZ domain	F: Pyrid_oxidase_2	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.40.50.2300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Response regulator	CATH (4.3.0)
B	1.10.1240.30	Mainly Alpha	Orthogonal Bundle	Methyltransferase, Methionine Synthase (B12-binding Domains)	Chain A, domain 1	CATH (4.3.0)
A	3.40.50.2300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Response regulator	CATH (4.3.0)
A	1.10.1240.30	Mainly Alpha	Orthogonal Bundle	Methyltransferase, Methionine Synthase (B12-binding Domains)	Chain A, domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF21714	Circadian clock protein KaiA, N-terminal domain (KaiA_N)	Circadian clock protein KaiA, N-terminal domain	This domain is found at the N-terminal end of Circadian clock protein KaiA from Synechococcus elongatus and similar bacterial proteins. KaiA is essential for circadian timekeeping. This protein organised into two domains. This entry represents the a ...	This domain is found at the N-terminal end of Circadian clock protein KaiA from Synechococcus elongatus and similar bacterial proteins. KaiA is essential for circadian timekeeping. This protein organised into two domains. This entry represents the a pseudo-receiver domain, which has a similar fold with that of bacterial response regulators, with an alpha-beta structure [1-5].	Domain
A, B	PF07688	KaiA C-terminal domain (KaiA)	KaiA C-terminal domain	The cyanobacterial clock proteins KaiA and KaiB are proposed as regulators of the circadian rhythm in cyanobacteria. The overall fold of the KaiA C-terminal domain is that of a four-helix bundle, which forms a dimer in the known structure [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	KaiA	identical protein binding protein binding binding	rhythmic process circadian rhythm regulation of biological process positive regulation of circadian rhythm biological regulation positive regulation of biological process regulation of circadian rhythm detection of stimulus response to stimulus response to chemical detection of redox state detection of chemical stimulus response to redox state entrainment of circadian clock rhythmic process circadian rhythm regulation of biological process positive regulation of circadian rhythm biological regulation positive regulation of biological process regulation of circadian rhythm detection of stimulus response to stimulus response to chemical detection of redox state detection of chemical stimulus response to redox state entrainment of circadian clock response to external stimulus	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR011006	CheY-like superfamily	Homologous Superfamily
A, B	IPR011648	Circadian clock oscillator protein KaiA	Family
A, B	IPR020844	Circadian clock protein KaiA, N-terminal	Domain
A, B	IPR017944	KaiA/RbsU helical domain superfamily	Homologous Superfamily
A, B	IPR020856	Circadian clock oscillator protein KaiA, C-terminal	Domain

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.