4CV5 | pdb_00004cv5

yeast NOT1 CN9BD-CAF40 complex

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)
D	SCOP2B Superfamily	ARM repeat-like	8090036	3000116	SCOP2B (2022-06-29)
B	SCOP2 Family	Rcd1-like	8045301	4004397	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	ARM repeat-like	8090036	3000116	SCOP2 (2022-06-29)
C	SCOP2B Superfamily	Not1 3-helical bundle-like	8090037	3002412	SCOP2B (2022-06-29)
A	SCOP2 Family	Not1 3-helical bundle-like	8047999	4005904	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Not1 3-helical bundle-like	8090037	3002412	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		e4cv5D1	A: Glycosyl hydrolase domain-like	X: alpha/alpha toroid	H: alpha/alpha toroid	T: Aldo_ket_red	F:	ECOD (20:10:01)
B		e4cv5B1	A: Glycosyl hydrolase domain-like	X: alpha/alpha toroid	H: alpha/alpha toroid	T: Aldo_ket_red	F:	ECOD (20:10:01)
C		e4cv5C1	A: Outer membrane meander beta-barrels	X: Porins	H: Porin	T: Hemagglutinin	F:	ECOD (20:10:01)
A		e4cv5A1	A: Alpha-beta plaits	X: Protease propeptides/inhibitors	H: Protease propeptides/inhibitors	T: HGTP_anticodon	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	1.25.10.10	Mainly Alpha	Alpha Horseshoe	Leucine-rich Repeat Variant	Leucine-rich Repeat Variant	CATH (4.3.0)
B	1.25.10.10	Mainly Alpha	Alpha Horseshoe	Leucine-rich Repeat Variant	Leucine-rich Repeat Variant	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B, D	PF04078	Cell differentiation family, Rcd1-like (Rcd1)	Cell differentiation family, Rcd1-like	-	Repeat
A, C	PF12842	CCR4-Not complex, Not1 subunit, domain of unknown function DUF3819 (DUF3819)	CCR4-Not complex, Not1 subunit, domain of unknown function DUF3819	This is an uncharacterised domain that is found on the CCR4-Not complex component Not1. Not1 is a global regulator of transcription that affects genes positively and negatively and is thought to regulate transcription factor TFIID [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, D	PROTEIN CAF40	-	regulation of cellular process negative regulation of biological process regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of metabolic process post-transcriptional regulation of gene expression regulation of RNA metabolic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of biological quality RNA catabolic process mRNA catabolic process regulation of biological process negative regulation of metabolic process regulation of cellular process negative regulation of biological process regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of metabolic process post-transcriptional regulation of gene expression regulation of RNA metabolic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of biological quality RNA catabolic process mRNA catabolic process regulation of biological process negative regulation of metabolic process positive regulation of mRNA metabolic process primary metabolic process nucleobase-containing compound catabolic process nuclear-transcribed mRNA poly(A) tail shortening positive regulation of RNA metabolic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of macromolecule biosynthetic process nucleic acid catabolic process regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of metabolic process nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay catabolic process positive regulation of biological process RNA metabolic process macromolecule catabolic process mRNA destabilization regulation of mRNA catabolic process negative regulation of cellular process positive regulation of cellular process negative regulation of macromolecule metabolic process regulation of biosynthetic process nuclear-transcribed mRNA catabolic process RNA destabilization biological regulation regulation of macromolecule metabolic process regulation of catabolic process gene expression macromolecule biosynthetic process mRNA metabolic process nucleic acid metabolic process positive regulation of catabolic process regulation of mRNA stability negative regulation of biosynthetic process positive regulation of mRNA catabolic process regulation of RNA stability cellular process regulation of mRNA metabolic process transcription elongation by RNA polymerase II positive regulation of DNA-templated transcription positive regulation of transcription elongation by RNA polymerase II positive regulation of macromolecule biosynthetic process RNA biosynthetic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II positive regulation of biosynthetic process positive regulation of DNA-templated transcription, elongation regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II regulation of DNA-templated transcription elongation regulation of transcription elongation by RNA polymerase II nucleobase-containing compound biosynthetic process positive regulation of transcription by RNA polymerase II DNA-templated transcription elongation positive regulation of RNA biosynthetic process regulation of DNA-templated transcription protein biosynthetic process negative regulation of translation protein metabolic process negative regulation of protein metabolic process regulation of protein metabolic process translation regulation of translation	intracellular anatomical structure cytoplasmic ribonucleoprotein granule intracellular membraneless organelle ribonucleoprotein granule intracellular organelle cellular anatomical structure organelle membraneless organelle cytoplasm supramolecular complex P-body protein-containing complex CCR4-NOT complex CCR4-NOT core complex intracellular anatomical structure cytoplasmic ribonucleoprotein granule intracellular membraneless organelle ribonucleoprotein granule intracellular organelle cellular anatomical structure organelle membraneless organelle cytoplasm supramolecular complex P-body protein-containing complex CCR4-NOT complex CCR4-NOT core complex intracellular protein-containing complex membrane-bounded organelle nucleus intracellular membrane-bounded organelle
A, C	GENERAL NEGATIVE REGULATOR OF TRANSCRIPTION SUBUNIT 1	ATPase activator activity molecular function activator activity molecular function regulator activity ATPase regulator activity molecular adaptor activity	regulation of cellular process negative regulation of biological process protein biosynthetic process regulation of primary metabolic process post-transcriptional regulation of gene expression negative regulation of translation negative regulation of cellular process protein metabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process regulation of protein metabolic process negative regulation of metabolic process regulation of cellular process negative regulation of biological process protein biosynthetic process regulation of primary metabolic process post-transcriptional regulation of gene expression negative regulation of translation negative regulation of cellular process protein metabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process regulation of protein metabolic process negative regulation of metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process gene expression translation macromolecule biosynthetic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process regulation of translation negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process regulation of metabolic process pseudohyphal growth growth growth of unicellular organism as a thread of attached cells filamentous growth cell growth filamentous growth of a population of unicellular organisms nucleobase-containing compound metabolic process positive regulation of metabolic process regulation of RNA metabolic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of biological quality RNA catabolic process mRNA catabolic process positive regulation of mRNA metabolic process nucleobase-containing compound catabolic process nuclear-transcribed mRNA poly(A) tail shortening positive regulation of RNA metabolic process nucleic acid catabolic process nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay catabolic process positive regulation of biological process RNA metabolic process macromolecule catabolic process mRNA destabilization regulation of mRNA catabolic process positive regulation of cellular process nuclear-transcribed mRNA catabolic process RNA destabilization regulation of catabolic process mRNA metabolic process nucleic acid metabolic process positive regulation of catabolic process regulation of mRNA stability positive regulation of mRNA catabolic process regulation of RNA stability regulation of mRNA metabolic process regulation of cellular component organization negative regulation of cytoplasmic mRNA processing body assembly regulation of cytoplasmic mRNA processing body assembly membraneless organelle assembly negative regulation of organelle assembly cellular component biogenesis cellular component organization cellular component assembly cellular component organization or biogenesis organelle assembly negative regulation of cellular component organization P-body assembly regulation of cellular component biogenesis regulation of organelle organization organelle organization negative regulation of organelle organization regulation of organelle assembly cellular response to stimulus sexual reproduction response to stimulus reproductive process response to pheromone conjugation with cellular fusion cellular response to pheromone response to pheromone triggering conjugation with cellular fusion cellular response to chemical stimulus response to chemical transcription elongation by RNA polymerase II nucleobase-containing compound biosynthetic process RNA biosynthetic process DNA-templated transcription nucleic acid biosynthetic process DNA-templated transcription elongation transcription by RNA polymerase II regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II regulation of DNA-templated transcription positive regulation of DNA-templated transcription positive regulation of transcription elongation by RNA polymerase II positive regulation of macromolecule biosynthetic process positive regulation of biosynthetic process positive regulation of DNA-templated transcription, elongation regulation of DNA-templated transcription elongation regulation of transcription elongation by RNA polymerase II positive regulation of transcription by RNA polymerase II positive regulation of RNA biosynthetic process cell cycle regulation of cell cycle	cellular anatomical structure intracellular anatomical structure cytoplasm cytoplasmic ribonucleoprotein granule intracellular membraneless organelle ribonucleoprotein granule intracellular organelle organelle membraneless organelle supramolecular complex P-body protein-containing complex CCR4-NOT complex CCR4-NOT core complex cellular anatomical structure intracellular anatomical structure cytoplasm cytoplasmic ribonucleoprotein granule intracellular membraneless organelle ribonucleoprotein granule intracellular organelle organelle membraneless organelle supramolecular complex P-body protein-containing complex CCR4-NOT complex CCR4-NOT core complex intracellular protein-containing complex membrane-bounded organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, D	IPR011989	Armadillo-like helical	Homologous Superfamily
B, D	IPR016024	Armadillo-type fold	Homologous Superfamily
B, D	IPR007216	CCR4-NOT transcription complex subunit 9	Family
A, C	IPR032195	CCR4-NOT transcription complex subunit 1, HEAT repeat 1	Domain
A, C	IPR024557	CCR4-NOT transcription complex subunit 1, domain 4	Domain
A, C	IPR032191	CCR4-NOT transcription complex subunit 1, CAF1-binding domain	Domain
A, C	IPR032193	CCR4-NOT transcription complex subunit 1, TTP binding domain	Domain
A, C	IPR038535	CCR4-NOT subunit 1, TTP binding domain superfamily	Homologous Superfamily
A, C	IPR040398	CCR4-NOT transcription complex subunit 1	Family
A, C	IPR055454	CCR4-NOT transcription complex subunit 1-like, NOT1 connector	Domain
A, C	IPR007196	CCR4-Not complex component, Not1, C-terminal	Domain
A, C	IPR032194	CCR4-NOT transcription complex subunit 1, HEAT repeat	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.