1YK5 | pdb_00001yk5

Pyrococcus abyssi rubredoxin

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)
D	d1yk5d_	Small proteins	Rubredoxin-like	Rubredoxin-like	Rubredoxin	Rubredoxin	(Pyrococcus abyssi ) [TaxId: 29292 ],	SCOPe (2.08)
C	d1yk5c_	Small proteins	Rubredoxin-like	Rubredoxin-like	Rubredoxin	Rubredoxin	(Pyrococcus abyssi ) [TaxId: 29292 ],	SCOPe (2.08)
B	d1yk5b_	Small proteins	Rubredoxin-like	Rubredoxin-like	Rubredoxin	Rubredoxin	(Pyrococcus abyssi ) [TaxId: 29292 ],	SCOPe (2.08)
A	d1yk5a_	Small proteins	Rubredoxin-like	Rubredoxin-like	Rubredoxin	Rubredoxin	(Pyrococcus abyssi ) [TaxId: 29292 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	Rubredoxin-like	8068775	3001257	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Rubredoxin-like	8068775	3001257	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Rubredoxin-like	8068775	3001257	SCOP2B (2022-06-29)
A	SCOP2 Family	Rubredoxin	8068774	4003679	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Rubredoxin-like	8068775	3001257	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)
D	MATH_2	e1yk5D1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: MATH_2	ECOD (v294.1)
C	MATH_2	e1yk5C1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: MATH_2	ECOD (v294.1)
B	MATH_2	e1yk5B1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: MATH_2	ECOD (v294.1)
A	EF-hand_6	e1yk5A1	A: a/b three-layered sandwiches	X: Globin-like	H: Globin-like	T: Globin-like	F: EF-hand_6	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	2.20.28.10	Mainly Beta	Single Sheet	Rubrerythrin, domain 2		CATH (4.3.0)
C	2.20.28.10	Mainly Beta	Single Sheet	Rubrerythrin, domain 2		CATH (4.3.0)
B	2.20.28.10	Mainly Beta	Single Sheet	Rubrerythrin, domain 2		CATH (4.3.0)
A	2.20.28.10	Mainly Beta	Single Sheet	Rubrerythrin, 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, C, D	Rubredoxin	electron transfer activity cation binding transition metal ion binding iron ion binding ion binding binding metal ion binding small molecule binding	catabolic process hydrocarbon catabolic process metabolic process cellular process alkane catabolic process hydrocarbon metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR050526	Rubredoxin electron transfer	Family
A, B, C, D	IPR018527	Rubredoxin, iron-binding site	Binding Site
A, B, C, D	IPR024922	Rubredoxin	Family
A, B, C, D	IPR024934	Rubredoxin-like domain	Domain
A, B, C, D	IPR024935	Rubredoxin domain	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.