5C2Y | pdb_00005c2y

Crystal structure of the Saccharomyces cerevisiae Rtr1 (regulator of transcription)

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Rtr1/RPAP2-like	8045519	4004511	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Glucocorticoid receptor-like (DNA-binding domain)	8090556	3000068	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Glucocorticoid receptor-like (DNA-binding domain)	8090556	3000068	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	PDZ_2	e5c2yA1	A: a/b three-layered sandwiches	X: alpha/beta knot	H: alpha/beta knot	T: alpha/beta knot	F: PDZ_2	ECOD (v294.1)
B	PDZ_2	e5c2yB1	A: a/b three-layered sandwiches	X: alpha/beta knot	H: alpha/beta knot	T: alpha/beta knot	F: PDZ_2	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.25.40.820	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat	Rtr1/RPAP2 domain	CATH (4.3.0)
B	1.25.40.820	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat	Rtr1/RPAP2 domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF04181	Rtr1/RPAP2 family (RPAP2_Rtr1)	Rtr1/RPAP2 family	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	RNA polymerase II subunit B1 CTD phosphatase RTR1	phosphoric ester hydrolase activity phosphoprotein phosphatase activity protein serine/threonine phosphatase activity RNA polymerase II CTD heptapeptide repeat modifying activity catalytic activity, acting on a protein RNA polymerase II CTD heptapeptide repeat phosphatase activity hydrolase activity, acting on ester bonds phosphatase activity hydrolase activity catalytic activity RNA polymerase binding protein binding binding RNA polymerase core enzyme binding phosphoric ester hydrolase activity phosphoprotein phosphatase activity protein serine/threonine phosphatase activity RNA polymerase II CTD heptapeptide repeat modifying activity catalytic activity, acting on a protein RNA polymerase II CTD heptapeptide repeat phosphatase activity hydrolase activity, acting on ester bonds phosphatase activity hydrolase activity catalytic activity RNA polymerase binding protein binding binding RNA polymerase core enzyme binding enzyme binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process cellular process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process cellular process macromolecule metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR007308	Rtr1/RPAP2 domain	Domain
A, B	IPR039693	Rtr1/RPAP2	Family
A, B	IPR038534	Rtr1/RPAP2 domain superfamily	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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.

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