AiPD: Autoinhibited Protein Database

Q92600

Gene name	CNOT9
Protein name	CCR4-NOT transcription complex subunit 9
Names	Cell differentiation protein RQCD1 homolog, Rcd-1
Species	Homo sapiens (Human)
KEGG Pathway	hsa:9125
EC number
Protein Class

Descriptions

The autoinhibited protein was predicted that may have potential autoinhibitory elements via cis-regPred.

Autoinhibitory domains (AIDs)

1-79 (Predicted disordered autoinhibitory region) PR

Target domain
Relief mechanism
Assay	cis-regPred

AID

1-79 (Predicted disordered autoinhibitory region)

Target domain

Relief mechanism

Assay

cis-regPred

Accessory elements

No accessory elements

References

Yeon JH et al. (2016) "Systems-wide Identification of cis-Regulatory Elements in Proteins", Cell Systems, 2, 89-100

Autoinhibited structure

Activated structure

11 structures for Q92600

Entry ID	Method	Resolution	Chain	Position	Source
2FV2	X-ray	220 A	A/B/C/D	18-285	PDB
4CRU	X-ray	165 A	B	19-285	PDB
4CRV	X-ray	205 A	B	19-285	PDB
4CT6	X-ray	210 A	B	18-285	PDB
4CT7	X-ray	190 A	B	16-285	PDB
5LSW	X-ray	215 A	A/C	19-285	PDB
5ONA	X-ray	270 A	B/E	19-285	PDB
5ONB	X-ray	300 A	A/C/E/G	19-285	PDB
6HOM	X-ray	210 A	A/C	19-285	PDB
6HON	X-ray	220 A	A/C	19-285	PDB
AF-Q92600-F1	Predicted				AlphaFoldDB

88 variants for Q92600

Variant ID(s)	Position	Change	Description	Diseaes Association	Provenance
RCV000427048 rs1057519957 RCV000434591 CA16602956 RCV000426322 RCV000444398 COSM247126 RCV000443624	87	S>C	urinary_tract Hepatocellular carcinoma prostate Gastric adenocarcinoma Prostate adenocarcinoma Malignant melanoma of skin [Cosmic, ClinVar]	Yes	ClinGen cosmic curated ClinVar Ensembl dbSNP
CA16602955 rs1057519956 RCV000431838 RCV000421602 RCV000422236 RCV000438382 RCV000431636	87	S>P	Variant assessed as Somatic; impact. Hepatocellular carcinoma Gastric adenocarcinoma Prostate adenocarcinoma Malignant melanoma of skin [NCI-TCGA, ClinVar]	Yes	ClinGen ClinVar Ensembl NCI-TCGA dbSNP
CA16602256 rs267599211 RCV002286407 COSM1692012 RCV000428811	131	P>L	NS Variant assessed as Somatic; impact. skin CNOT9-associated neurodevelopmental disorder Malignant melanoma of skin [Cosmic, NCI-TCGA, ClinVar]	Yes	ClinGen cosmic curated ClinVar Ensembl NCI-TCGA dbSNP
CA16602954 RCV000439915 rs1057519955	131	P>S	Variant assessed as Somatic; impact. Malignant melanoma of skin [NCI-TCGA, ClinVar]	Yes	ClinGen ClinVar Ensembl NCI-TCGA dbSNP
CA65769598 rs955622194	2	H>Y		No	ClinGen TOPMed
rs781199533 CA2107601	5	A>P		No	ClinGen ExAC gnomAD
CA65769611 rs758572192	5	A>V		No	ClinGen gnomAD
rs1223363126 CA350566350	9	P>S		No	ClinGen gnomAD
rs778082401 CA2107628	12	T>A		No	ClinGen ExAC TOPMed gnomAD
CA2107631 rs201648255	17	V>G		No	ClinGen ExAC gnomAD
CA2107630 rs771337558	17	V>L		No	ClinGen ExAC gnomAD
TCGA novel	18	D>N	Variant assessed as Somatic; impact. [NCI-TCGA]	No	NCI-TCGA
TCGA novel	21	K>N	Variant assessed as Somatic; impact. [NCI-TCGA]	No	NCI-TCGA
TCGA novel	25	W>C	Variant assessed as Somatic; impact. [NCI-TCGA]	No	NCI-TCGA
rs759865221 CA2107632	28	E>D		No	ClinGen ExAC gnomAD
CA2107633 rs769980167	31	S>G		No	ClinGen ExAC TOPMed gnomAD
CA350566687 rs1422163728	31	S>N		No	ClinGen TOPMed
rs1170015272 CA350566797	37	N>S		No	ClinGen TOPMed
CA350566955 rs1405200853	50	P>A		No	ClinGen gnomAD
rs761810000 CA2107635	53	A>S		No	ClinGen ExAC gnomAD
rs1293627863 CA350566994	54	P>H		No	ClinGen gnomAD
CA2107637 rs750409757	54	P>S		No	ClinGen ExAC gnomAD
CA65776016 CA2107638 rs760332092	55	M>I		No	ClinGen ExAC gnomAD
CA350567001 rs1433395376	55	M>V		No	ClinGen gnomAD
rs1559245853 CA350567063	58	H>Y		No	ClinGen Ensembl
rs866418872 CA65776021	59	S>L		No	ClinGen Ensembl
CA65776023 rs868797174	62	T>N		No	ClinGen Ensembl
TCGA novel	67	L>Y	Variant assessed as Somatic; impact. [NCI-TCGA]	No	NCI-TCGA
rs757833728 CA2107661	71	V>I		No	ClinGen ExAC
rs757833728 CA65777773	71	V>L		No	ClinGen ExAC
TCGA novel rs761843684 CA2107662	74	Y>F	Variant assessed as Somatic; impact. [NCI-TCGA]	No	ClinGen ExAC gnomAD NCI-TCGA
rs751992889 CA2107663	75	P>A		No	ClinGen ExAC gnomAD
CA65777785 rs1008307604	77	I>V		No	ClinGen gnomAD
CA2107666 rs746201725	78	N>S		No	ClinGen ExAC gnomAD
CA2107668 rs780367087	80	P>H		No	ClinGen ExAC gnomAD
rs769567492 CA65777807	80	P>S		No	ClinGen Ensembl
TCGA novel	90	V>F	Variant assessed as Somatic; impact. [NCI-TCGA]	No	NCI-TCGA
COSM1405470 CA350568423 rs1384270952	104	P>L	Variant assessed as Somatic; 0.0 impact. large_intestine [NCI-TCGA, Cosmic]	No	ClinGen cosmic curated NCI-TCGA gnomAD
COSM1240105 CA2107691 rs781114199	109	A>V	oesophagus [Cosmic]	No	ClinGen cosmic curated ExAC gnomAD
CA350569014 rs148321797	112	A>S		No	ClinGen ESP ExAC TOPMed gnomAD
CA2107694 rs148321797	112	A>T		No	ClinGen ESP ExAC TOPMed gnomAD
CA350569035 rs1184159389	115	I>V		No	ClinGen gnomAD
rs985331034 CA65779145	118	F>C		No	ClinGen TOPMed
rs909910605 CA65779164	125	T>S		No	ClinGen TOPMed gnomAD
TCGA novel	127	S>N	Variant assessed as Somatic; impact. [NCI-TCGA]	No	NCI-TCGA
CA350569177 rs1303194811	136	R>W		No	ClinGen TOPMed gnomAD
VAR_042429	143	I>T		No	UniProt
CA350569559 rs1489429363	147	V>G		No	ClinGen TOPMed gnomAD
rs745779361 CA2107714	152	Q>K		No	ClinGen ExAC gnomAD
TCGA novel	154	V>L	Variant assessed as Somatic; impact. [NCI-TCGA]	No	NCI-TCGA
rs769758941 CA2107715	156	N>H		No	ClinGen ExAC gnomAD
CA350570000 rs1162179403	176	E>K		No	ClinGen gnomAD
CA2107719 rs773985784	179	K>R		No	ClinGen ExAC gnomAD
rs1559251516 CA350570986	186	L>V		No	ClinGen Ensembl
rs1235938009 CA350571093	195	G>R		No	ClinGen TOPMed
CA2107732 rs758592868	199	I>V		No	ClinGen ExAC gnomAD
rs1283268656 CA350571218	203	Y>C		No	ClinGen TOPMed
TCGA novel	205	R>C	Variant assessed as Somatic; impact. [NCI-TCGA]	No	NCI-TCGA
rs751598557 CA2107734	213	L>S		No	ClinGen ExAC gnomAD
rs371657767 CA2107747	214	G>S		No	ClinGen ESP ExAC gnomAD
rs369421512 CA2107749	221	S>F		No	ClinGen ESP ExAC gnomAD
CA65784838 rs916840193	223	E>D		No	ClinGen TOPMed
CA2107751 rs549239629	224	P>A		No	ClinGen 1000Genomes ExAC gnomAD
rs757260957 CA2107753	232	V>I		No	ClinGen ExAC gnomAD
TCGA novel	234	R>K	Variant assessed as Somatic; impact. [NCI-TCGA]	No	NCI-TCGA
TCGA novel	238	R>*	Variant assessed as Somatic; impact. [NCI-TCGA]	No	NCI-TCGA
rs752696337 CA2107776	246	R>C		No	ClinGen ExAC gnomAD
rs758205812 CA2107777	246	R>H		No	ClinGen ExAC gnomAD
CA350573303 rs1362166553	258	K>R		No	ClinGen gnomAD
TCGA novel	260	T>A	Variant assessed as Somatic; impact. [NCI-TCGA]	No	NCI-TCGA
rs1400260914 CA350573337	260	T>K		No	ClinGen gnomAD
rs769358178 CA2107783	263	A>T		No	ClinGen ExAC TOPMed gnomAD
CA350573409 rs1246426545	264	Q>R		No	ClinGen gnomAD
COSM1224281 rs780357139 CA2107784	269	D>G	large_intestine [Cosmic]	No	ClinGen cosmic curated ExAC gnomAD
CA350573544 rs1411948409	272	T>M		No	ClinGen TOPMed
rs768993950 CA2107786	274	R>C		No	ClinGen ExAC gnomAD
rs774747597 CA2107787	274	R>H		No	ClinGen ExAC gnomAD
CA65785735 rs917847077	278	Q>E		No	ClinGen TOPMed
rs1575000213 CA350573657	280	V>G		No	ClinGen Ensembl
rs761992464 CA2107788	288	V>F		No	ClinGen ExAC gnomAD
rs1575000233 CA350573771	288	V>G		No	ClinGen Ensembl
rs772244185 CA2107789	289	T>S		No	ClinGen ExAC gnomAD
CA2107791 rs760616522	290	D>N		No	ClinGen ExAC TOPMed gnomAD
CA2107792 rs762147895	291	P>S		No	ClinGen ExAC TOPMed gnomAD
CA2107794 rs554656744	292	R>Q		No	ClinGen 1000Genomes ExAC gnomAD
CA65785756 rs981210817	292	R>W		No	ClinGen TOPMed
CA350573871 rs1575000262	298	P>A		No	ClinGen Ensembl
rs751356765 CA2107796	299	Q>*		No	ClinGen ExAC gnomAD

No associated diseases with Q92600

No regional properties for Q92600

Type	Name	Position	InterPro Accession
No domain, repeats, and functional sites for Q92600

Functions

		Description
EC Number
Subcellular Localization	Nucleus Cytoplasm, P-body	NANOS2 promotes its localization to P-body
PANTHER Family
PANTHER Subfamily
PANTHER Protein Class
PANTHER Pathway Category	No pathway information available

7 GO annotations of cellular component

Name	Definition
CCR4-NOT complex	The Ccr4-Not complex is an eukaryotically conserved deadenylase that can initiate cytoplasmic mRNA decay, and reduce translation by releasing poly(A)-binding protein (Pab1/PABPC1). Ccr4-Not contains seven core subunits, including two poly(A)-specific exonucleases, Ccr4/CNOT6/CNOT6L and Caf1/Pop2/CNOT7/CNOT8.
CCR4-NOT core complex	The core of the CCR4-NOT complex. In Saccharomyces the CCR4-NOT core complex comprises Ccr4p, Caf1p, Caf40p, Caf130p, Not1p, Not2p, Not3p, Not4p, and Not5p.
cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
P-body	A focus in the cytoplasm where mRNAs may become inactivated by decapping or some other mechanism. Protein and RNA localized to these foci are involved in mRNA degradation, nonsense-mediated mRNA decay (NMD), translational repression, and RNA-mediated gene silencing.
protein-containing complex	A stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which at least one component is a protein and the constituent parts function together.

5 GO annotations of molecular function

Name	Definition
epidermal growth factor receptor binding	Binding to an epidermal growth factor receptor.
kinase binding	Binding to a kinase, any enzyme that catalyzes the transfer of a phosphate group.
nuclear receptor coactivator activity	A transcription coactivator activity that activates or increases the transcription of specific gene sets via binding to a DNA-bound nuclear receptor, either on its own or as part of a complex. Coactivators often act by altering chromatin structure and modifications. For example, one class of transcription coregulators modifies chromatin structure through covalent modification of histones. A second class remodels the conformation of chromatin in an ATP-dependent fashion. A third class modulates interactions of DNA-bound DNA-binding transcription factors with other transcription coregulators. A fourth class of coactivator activity is the bridging of a DNA-binding transcription factor to the general (basal) transcription machinery. The Mediator complex, which bridges sequence-specific DNA binding transcription factors and RNA polymerase, is also a transcription coactivator.
protein domain specific binding	Binding to a specific domain of a protein.
protein homodimerization activity	Binding to an identical protein to form a homodimer.

8 GO annotations of biological process

Name	Definition
cytokine-mediated signaling pathway	The series of molecular signals initiated by the binding of a cytokine to a receptor on the surface of a cell, and ending with the regulation of a downstream cellular process, e.g. transcription.
gene silencing by RNA	A process in which an RNA molecule reduces expression of target genes. This can occur pre-transcriptionally by assembly of heterochromatin and prevention of transcription or co- or post-transcriptionally by targeting RNAs for degradation or by interfering with splicing or translation. This process starts once the inhibitory RNA molecule has been transcribed, and includes processing of the RNA such as cleavage, modifications, transport from the nucleus to the cytoplasm, loading onto the RISC complex, and the effect on transcription or translation.
negative regulation of intracellular estrogen receptor signaling pathway	Any process that stops, prevents, or reduces the frequency, rate or extent of the activity of an intracellular estrogen receptor signaling pathway.
negative regulation of translation	Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of proteins by the translation of mRNA or circRNA.
nuclear-transcribed mRNA poly(A) tail shortening	Shortening of the poly(A) tail of a nuclear-transcribed mRNA from full length to an oligo(A) length.
positive regulation of epidermal growth factor receptor signaling pathway	Any process that activates or increases the frequency, rate or extent of epidermal growth factor receptor signaling pathway activity.
positive regulation of peptidyl-serine phosphorylation	Any process that activates or increases the frequency, rate or extent of the phosphorylation of peptidyl-serine.
sex differentiation	The establishment of the sex of an organism by physical differentiation.

5 homologous proteins in AiPD

UniProt AC	Gene Name	Protein Name	Species	Evidence Code
A7MB47	CNOT9	CCR4-NOT transcription complex subunit 9	Bos taurus (Bovine)	PR
Q9JKY0	Cnot9	CCR4-NOT transcription complex subunit 9	Mus musculus (Mouse)	PR
Q5PQL2	Cnot9	CCR4-NOT transcription complex subunit 9	Rattus norvegicus (Rat)	PR
Q6P819	cnot9	CCR4-NOT transcription complex subunit 9	Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)	PR
Q6NWL4	cnot9	CCR4-NOT transcription complex subunit 9	Danio rerio (Zebrafish) (Brachydanio rerio)	PR

10	20	30	40	50	60
MHSLATAAPV	PTTLAQVDRE	KIYQWINELS	SPETRENALL	ELSKKRESVP	DLAPMLWHSF
70	80	90	100	110	120
GTIAALLQEI	VNIYPSINPP	TLTAHQSNRV	CNALALLQCV	ASHPETRSAF	LAAHIPLFLY
130	140	150	160	170	180
PFLHTVSKTR	PFEYLRLTSL	GVIGALVKTD	EQEVINFLLT	TEIIPLCLRI	MESGSELSKT
190	200	210	220	230	240
VATFILQKIL	LDDTGLAYIC	QTYERFSHVA	MILGKMVLQL	SKEPSARLLK	HVVRCYLRLS
250	260	270	280	290
DNPRAREALR	QCLPDQLKDT	TFAQVLKDDT	TTKRWLAQLV	KNLQEGQVTD	PRGIPLPPQ