4CQO

Structure of the human CNOT1 superfamily homology domain in complex with a Nanos1 peptide

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Not1-like	8045230	4004363	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	ARM repeat-like	8057081	3000116	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	ARM repeat-like	8057082	3000116	SCOP2 (2022-06-29)
C	SCOP2B Superfamily	ARM repeat-like	8057081	3000116	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	ARM repeat-like	8057082	3000116	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	Not1	e4cqoA1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: Not1	ECOD (1.6)
C	Not1	e4cqoC1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: Not1	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C	PF04054	CCR4-Not complex component, Not1 (Not1)	CCR4-Not complex component, Not1	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C	CCR4-NOT TRANSCRIPTION COMPLEX SUBUNIT 1	protein binding binding protein domain specific binding transcription factor binding nuclear retinoic acid receptor binding RNA polymerase II-specific DNA-binding transcription factor binding nuclear receptor binding DNA-binding transcription factor binding RNA binding organic cyclic compound binding nucleic acid binding armadillo repeat domain binding molecular adaptor activity nuclear estrogen receptor binding	developmental process multicellular organismal process regulation of biological process regulation of developmental process biological regulation regulation of stem cell population maintenance regulation of multicellular organismal process maintenance of cell number stem cell population maintenance regulation of cellular process cellular biosynthetic process organonitrogen compound biosynthetic process negative regulation of biological process negative regulation of cellular metabolic process developmental process multicellular organismal process regulation of biological process regulation of developmental process biological regulation regulation of stem cell population maintenance regulation of multicellular organismal process maintenance of cell number stem cell population maintenance regulation of cellular process cellular biosynthetic process organonitrogen compound biosynthetic process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process post-transcriptional regulation of gene expression negative regulation of translation organic substance metabolic process organic substance biosynthetic process negative regulation of cellular process protein metabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process regulation of biosynthetic process organonitrogen compound metabolic process cellular metabolic process regulation of protein metabolic process negative regulation of metabolic process regulation of cellular metabolic process primary metabolic process regulation of macromolecule metabolic process gene expression translation macromolecule biosynthetic process negative regulation of cellular biosynthetic process regulation of cellular 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 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 nucleobase-containing compound metabolic 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 organic cyclic compound 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 nuclear-transcribed mRNA catabolic process RNA destabilization regulation of catabolic process mRNA metabolic process nucleic acid metabolic process organic cyclic compound catabolic 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 organic substance catabolic process positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay trophectodermal cell differentiation cellular developmental process chordate embryonic development embryo development in utero embryonic development multicellular organism development anatomical structure morphogenesis blastocyst formation embryo development ending in birth or egg hatching cell differentiation anatomical structure development anatomical structure formation involved in morphogenesis blastocyst development positive regulation of nuclear-transcribed mRNA poly(A) tail shortening regulation of nuclear-transcribed mRNA poly(A) tail shortening positive regulation of organelle organization regulation of cellular component organization positive regulation of cellular component organization positive regulation of cytoplasmic mRNA processing body assembly regulation of cytoplasmic mRNA processing body assembly non-membrane-bounded organelle assembly cellular component biogenesis cellular component organization cellular component assembly cellular component organization or biogenesis positive regulation of cellular process organelle assembly P-body assembly positive regulation of cellular component biogenesis regulation of cellular component biogenesis regulation of organelle organization organelle organization regulation of organelle assembly positive regulation of organelle assembly cellular response to stimulus intracellular receptor signaling pathway response to stimulus signaling negative regulation of signaling regulation of retinoic acid receptor signaling pathway regulation of signal transduction negative regulation of cell communication cell communication signal transduction regulation of signaling negative regulation of response to stimulus negative regulation of retinoic acid receptor signaling pathway retinoic acid receptor signaling pathway negative regulation of signal transduction regulation of response to stimulus regulation of cell communication response to organic substance response to lipid intracellular estrogen receptor signaling pathway hormone-mediated signaling pathway negative regulation of intracellular steroid hormone receptor signaling pathway cellular response to endogenous stimulus response to hormone response to steroid hormone regulation of intracellular steroid hormone receptor signaling pathway regulation of intracellular estrogen receptor signaling pathway cellular response to organic substance cellular response to steroid hormone stimulus response to organic cyclic compound negative regulation of intracellular estrogen receptor signaling pathway cellular response to hormone stimulus response to endogenous stimulus cellular response to organic cyclic compound cellular response to chemical stimulus steroid hormone mediated signaling pathway response to chemical cellular response to lipid nuclear receptor signaling pathway intracellular steroid hormone receptor signaling pathway negative regulation of RNA biosynthetic process DNA-templated transcription transcription by RNA polymerase II negative regulation of nucleobase-containing compound metabolic process regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II organic cyclic compound biosynthetic process regulation of DNA-templated transcription negative regulation of RNA metabolic process RNA biosynthetic process nucleic acid biosynthetic process regulation of RNA biosynthetic process nucleobase-containing compound biosynthetic process regulatory ncRNA-mediated post-transcriptional gene silencing regulatory ncRNA-mediated gene silencing miRNA-mediated post-transcriptional gene silencing post-transcriptional gene silencing	membrane cellular anatomical entity intracellular anatomical structure cytoplasm cytosol CCR4-NOT complex protein-containing complex intracellular protein-containing complex membrane-bounded organelle peroxisome intracellular membrane-bounded organelle microbody membrane intracellular organelle bounding membrane of organelle membrane cellular anatomical entity intracellular anatomical structure cytoplasm cytosol CCR4-NOT complex protein-containing complex intracellular protein-containing complex membrane-bounded organelle peroxisome intracellular membrane-bounded organelle microbody membrane intracellular organelle bounding membrane of organelle organelle peroxisomal membrane microbody organelle membrane cytoplasmic ribonucleoprotein granule ribonucleoprotein granule intracellular non-membrane-bounded organelle supramolecular complex P-body non-membrane-bounded organelle CCR4-NOT core complex extracellular region extracellular space nucleus
B, D	NANOS HOMOLOG 1	RNA binding binding organic cyclic compound binding nucleic acid binding mRNA binding translation regulator activity translation repressor activity cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	developmental process multicellular organismal process head development cellular developmental process animal organ development brain development cell development nervous system development cerebellar neuron development generation of neurons multicellular organism development neurogenesis cerebellum development central nervous system development neuron differentiation developmental process multicellular organismal process head development cellular developmental process animal organ development brain development cell development nervous system development cerebellar neuron development generation of neurons multicellular organism development neurogenesis cerebellum development central nervous system development neuron differentiation metencephalon development cell differentiation neuron development anatomical structure development cellular process hindbrain development system development regulation of cellular process cellular biosynthetic process organonitrogen compound biosynthetic process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process post-transcriptional regulation of gene expression negative regulation of translation organic substance metabolic process organic substance biosynthetic process 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 organonitrogen compound metabolic process cellular metabolic process regulation of protein metabolic process negative regulation of metabolic process biological regulation regulation of cellular metabolic process primary metabolic process regulation of macromolecule metabolic process gene expression translation macromolecule biosynthetic process negative regulation of cellular biosynthetic process regulation of cellular 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 macromolecule metabolic process regulation of metabolic process sexual reproduction reproductive process oogenesis multicellular organismal reproductive process cellular process involved in reproduction in multicellular organism female gamete generation developmental process involved in reproduction gamete generation germ cell development epithelium migration tissue migration ameboidal-type cell migration epithelial cell migration cell migration cell motility multicellular organismal-level homeostasis homeostatic process anatomical structure homeostasis tissue homeostasis 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 nucleobase-containing compound metabolic process positive regulation of mRNA metabolic process positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay nucleobase-containing compound catabolic process positive regulation of RNA metabolic process organic cyclic compound 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 regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay RNA destabilization nuclear-transcribed mRNA catabolic process regulation of catabolic process mRNA metabolic process nucleic acid metabolic process organic cyclic compound catabolic process regulation of mRNA stability positive regulation of catabolic process positive regulation of mRNA catabolic process regulation of RNA stability regulation of mRNA metabolic process organic substance catabolic process regulation of growth regulation of cellular component organization growth regulation of cell growth cell growth cellular component organization cellular component organization or biogenesis	intracellular anatomical structure perinuclear region of cytoplasm cytoplasm cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
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	IPR007196	CCR4-Not complex component, Not1, C-terminal	Domain
A, C	IPR032194	CCR4-NOT transcription complex subunit 1, HEAT repeat	Domain
B, D	IPR008705	Nanos/Xcat2	Family
B, D	IPR038129	Nanos domain superfamily	Homologous Superfamily
B, D	IPR024161	Zinc finger, nanos-type	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, C	Pharos: A5YKK6	atypical teratoid rhabdoid tumor large cell medulloblastoma osteosarcoma spina bifida autism spectrum disorder malignant ependymoma ovarian cancer holoprosencephaly medulloblastoma psoriasis
B, D	Pharos: Q8WY41	spermatogenic failure 12 malignant mesothelioma pituitary cancer adrenal cortex carcinoma cystic fibrosis juvenile dermatomyositis male infertility with azoospermia or oligozoospermia due to single gene mutation osteosarcoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia amyotrophic lateral sclerosis Duchenne muscular dystrophy large cell medulloblastoma male infertility with teratozoospermia due to single gene mutation medulloblastoma ovarian cancer spermatogenic failure 12 malignant mesothelioma pituitary cancer adrenal cortex carcinoma cystic fibrosis juvenile dermatomyositis male infertility with azoospermia or oligozoospermia due to single gene mutation osteosarcoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia amyotrophic lateral sclerosis Duchenne muscular dystrophy large cell medulloblastoma male infertility with teratozoospermia due to single gene mutation medulloblastoma ovarian cancer pilocytic astrocytoma azoospermia Emery-Dreifuss muscular dystrophy limb-girdle muscular dystrophy malignant ependymoma non-small cell lung carcinoma pancreatic intraductal papillary-mucinous neoplasm

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.