NCOA3 nuclear receptor coactivator 3 [Homo sapiens (human)] - Gene

Summary

Official Symbol: NCOA3provided by HGNC
Official Full Name: nuclear receptor coactivator 3provided by HGNC
Primary source: HGNC:HGNC:7670
See related: Ensembl:ENSG00000124151 MIM:601937; AllianceGenome:HGNC:7670
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: ACTR; AIB1; RAC3; SRC3; pCIP; AIB-1; CTG26; SRC-3; CAGH16; KAT13B; TNRC14; TNRC16; TRAM-1; bHLHe42
Summary: The protein encoded by this gene is a nuclear receptor coactivator that interacts with nuclear hormone receptors to enhance their transcriptional activator functions. The encoded protein has histone acetyltransferase activity and recruits p300/CBP-associated factor and CREB binding protein as part of a multisubunit coactivation complex. This protein is initially found in the cytoplasm but is translocated into the nucleus upon phosphorylation. Several transcript variants encoding different isoforms have been found for this gene. In addition, a polymorphic repeat region is found in the C-terminus of the encoded protein. [provided by RefSeq, Mar 2010]
Annotation information: Note: RAC3 (Gene ID: 5881) and NCOA3 (Gene ID: 8202) share the RAC3 symbol/alias in common. RAC3 is a widely used alternative name for nuclear receptor coactivator 3 (NCOA3), which can be confused with the official symbol for ras-related C3 botulinum toxin substrate 3 (RAC3). [06 Jul 2018]
Expression: Ubiquitous expression in lymph node (RPKM 20.8), placenta (RPKM 19.0) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 20q13.12

Exon count:: 23

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	20	NC_000020.11 (47501887..47656872)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	20	NC_060944.1 (49240095..49395274)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	20	NC_000020.10 (46130631..46285616)

Chromosome 20 - NC_000020.11 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
BioProject: PRJEB4337
Publication: PMID 24309898
Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Deficiency of Nuclear Receptor Coactivator 3 Aggravates Diabetic Kidney Disease by Impairing Podocyte Autophagy.
Title: Deficiency of Nuclear Receptor Coactivator 3 Aggravates Diabetic Kidney Disease by Impairing Podocyte Autophagy.
Protective role of circRNA CCND1 in ulcerative colitis via miR-142-5p/NCOA3 axis.
Title: Protective role of circRNA CCND1 in ulcerative colitis via miR-142-5p/NCOA3 axis.
ZFP64::NCOA3 gene fusion defines a novel subset of spindle cell rhabdomyosarcoma.
Title: ZFP64::NCOA3 gene fusion defines a novel subset of spindle cell rhabdomyosarcoma.
NCOA3 is a critical oncogene in thyroid cancer via the modulation of major signaling pathways.
Title: NCOA3 is a critical oncogene in thyroid cancer via the modulation of major signaling pathways.
PAX2 promoter methylation and AIB1 overexpression promote tamoxifen resistance in breast carcinoma patients.
Title: PAX2 promoter methylation and AIB1 overexpression promote tamoxifen resistance in breast carcinoma patients.
Non-Syndromic Autosomal Dominant Hearing Loss: The First Italian Family Carrying a Mutation in the NCOA3 Gene.
Title: Non-Syndromic Autosomal Dominant Hearing Loss: The First Italian Family Carrying a Mutation in the NCOA3 Gene.
FBXL16 modulates the proliferation and autophagy in breast cancer cells via activating SRC-3-AKT signaling pathway.
Title: FBXL16 modulates the proliferation and autophagy in breast cancer cells via activating SRC-3-AKT signaling pathway.
An AIB1 Isoform Alters Enhancer Access and Enables Progression of Early-Stage Triple-Negative Breast Cancer.
Title: An AIB1 Isoform Alters Enhancer Access and Enables Progression of Early-Stage Triple-Negative Breast Cancer.
Functional relationship between CFTR and RAC3 expression for maintaining cancer cell stemness in human colorectal cancer.
Title: Functional relationship between CFTR and RAC3 expression for maintaining cancer cell stemness in human colorectal cancer.
PELP1/SRC-3-dependent regulation of metabolic PFKFB kinases drives therapy resistant ER(+) breast cancer.
Title: PELP1/SRC-3-dependent regulation of metabolic PFKFB kinases drives therapy resistant ER(+) breast cancer.

Submit: New GeneRIF Correction See all GeneRIFs (219)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
A meta-analysis of genome-wide association studies identifies novel variants associated with osteoarthritis of the hip. EBI GWAS Catalog EBI GWAS CatalogPubMed
Genome-wide interrogation of germline genetic variation associated with treatment response in childhood acute lymphoblastic leukemia. EBI GWAS Catalog EBI GWAS CatalogPubMed

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Replication interactions

Interaction	Pubs
Knockdown of nuclear receptor coactivator 3 (NCOA3) by shRNA library screening inhibits HIV-1 replication in cultured Jurkat T-cells	PubMed

Protein interactions

Protein	Gene	Interaction	Pubs
Tat	tat	NCOA3 is downregulated in HIV-1 Tat and NC cotransfection of HEK 293T cells	PubMed
	tat	p/CIP binds to HIV-1 Tat and enhances Tat-stimulated HIV-1 LTR promoter transactivation	PubMed
	tat	HIV-1 Tat may function as an adaptor molecule, efficiently stimulating the processes of transcription initiation and elongation through potentiation of the coupling of p160 co-activators and the P-TEFb complex	PubMed
nucleocapsid	gag	Nuclear receptor coactivator 3 (NCOA3) is downregulated in HIV-1 Tat and NC cotransfection of HEK 293T cells	PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH48397 (e-PCR)
- UniSTS:11526

Z94499 (e-PCR)
- UniSTS:73480

NCOA3_1532 (e-PCR)
- UniSTS:277525

AL031468 (e-PCR)
- UniSTS:65047

Z94538 (e-PCR)
- UniSTS:29215

WI-21757 (e-PCR)
- UniSTS:1058

D20S197 (e-PCR), detects polymorphism
- UniSTS:67110

D20S951 (e-PCR)
- UniSTS:50545

STS-H52110 (e-PCR)
- UniSTS:43635

D20S1123 (e-PCR)
- UniSTS:83067

PMC113761P3 (e-PCR)
- UniSTS:270254

Z94341 (e-PCR)
- UniSTS:79283

G64267 (e-PCR)
- UniSTS:158643

RH12403 (e-PCR)
- UniSTS:5305

RH18152 (e-PCR)
- UniSTS:209604

D20S542E (e-PCR)
- UniSTS:35037

D20S197 (e-PCR), detects polymorphism
- UniSTS:67550

G01531 (e-PCR)
- UniSTS:26092

SHGC-58803 (e-PCR)
- UniSTS:94449

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables RNA polymerase II complex binding	ISS Inferred from Sequence or Structural Similarity more info
enables disordered domain specific binding	IPI Inferred from Physical Interaction more info	PubMed
enables histone acetyltransferase activity	IDA Inferred from Direct Assay more info	PubMed
enables nuclear receptor binding	IBA Inferred from Biological aspect of Ancestor more info
enables nuclear receptor binding	IDA Inferred from Direct Assay more info	PubMed
enables nuclear receptor binding	IPI Inferred from Physical Interaction more info	PubMed
enables nuclear receptor coactivator activity	IBA Inferred from Biological aspect of Ancestor more info
enables nuclear receptor coactivator activity	IDA Inferred from Direct Assay more info	PubMed
enables nuclear thyroid hormone receptor binding	NAS Non-traceable Author Statement more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein dimerization activity	IEA Inferred from Electronic Annotation more info
enables transcription coactivator activity	IDA Inferred from Direct Assay more info	PubMed
enables transcription coactivator activity	IMP Inferred from Mutant Phenotype more info	PubMed

Process	Evidence Code	Pubs
involved_in cell dedifferentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in cellular response to estradiol stimulus	IDA Inferred from Direct Assay more info	PubMed
involved_in cellular response to hormone stimulus	IBA Inferred from Biological aspect of Ancestor more info
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of keratinocyte differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of stem cell population maintenance	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in receptor transactivation	TAS Traceable Author Statement more info	PubMed
involved_in regulation of stem cell division	ISS Inferred from Sequence or Structural Similarity more info
involved_in retinoic acid receptor signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in vitamin D receptor signaling pathway	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
located_in chromatin	IDA Inferred from Direct Assay more info	PubMed
located_in chromatin	ISA Inferred from Sequence Alignment more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytosol	IDA Inferred from Direct Assay more info
located_in extracellular exosome	HDA more info	PubMed
located_in nucleoplasm	IDA Inferred from Direct Assay more info
located_in nucleoplasm	TAS Traceable Author Statement more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
part_of protein-containing complex	IDA Inferred from Direct Assay more info	PubMed
part_of protein-containing complex	IMP Inferred from Mutant Phenotype more info	PubMed

General protein information

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Preferred Names: nuclear receptor coactivator 3

Names: CBP-interacting protein; amplified in breast cancer 1 protein; class E basic helix-loop-helix protein 42; receptor-associated coactivator 3; steroid receptor coactivator protein 3; thyroid hormone receptor activator molecule 1

NP_001167558.1

EC 2.3.1.48

NP_001167559.1

EC 2.3.1.48

NP_006525.2

EC 2.3.1.48

NP_858045.1

EC 2.3.1.48

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

NG_016810.2 RefSeqGene

Range

5002..159987

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001174087.2 → NP_001167558.1 nuclear receptor coactivator 3 isoform c

See identical proteins and their annotated locations for NP_001167558.1

Status: REVIEWED

Description

Transcript Variant: This variant (3) uses an alternate in-frame splice site compared to variant 1, resulting in a shorter isoform (c) compared to isoform a.

Source sequence(s)

AL021394, AL034418, AL353777

UniProtKB/TrEMBL

Q569F6

Conserved Domains (8) summary

smart00091
Location:116 → 173

PAS; PAS domain

cd18949
Location:29 → 101

bHLH-PAS_NCoA3_SRC3; basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in nuclear receptor coactivator 3 (NCoA-3) and similar proteins

pfam07469
Location:1290 → 1347

DUF1518; Domain of unknown function (DUF1518)

pfam08815
Location:1045 → 1091

Nuc_rec_co-act; Nuclear receptor coactivator

pfam08832
Location:616 → 704

SRC-1; Steroid receptor coactivator

pfam14598
Location:265 → 375

PAS_11; PAS domain

pfam16279
Location:723 → 810

DUF4927; Domain of unknown function (DUF4927)

pfam16665
Location:459 → 572

NCOA_u2; Unstructured region on nuclear receptor coactivator protein
NM_001174088.2 → NP_001167559.1 nuclear receptor coactivator 3 isoform d

See identical proteins and their annotated locations for NP_001167559.1

Status: REVIEWED

Description

Transcript Variant: This variant (4) uses three alternate in-frame splice sites compared to variant 1, resulting in a shorter isoform (d) compared to isoform a.

Source sequence(s)

AL021394, AL034418, AL353777

Consensus CDS

CCDS54472.1

UniProtKB/TrEMBL

Q0IIN7

Related

ENSP00000361065.3, ENST00000371997.3

Conserved Domains (9) summary

smart00353
Location:34 → 88

HLH; helix loop helix domain

smart00091
Location:116 → 173

PAS; PAS domain

pfam00989
Location:117 → 215

PAS; PAS fold

pfam07469
Location:1282 → 1339

DUF1518; Domain of unknown function (DUF1518)

pfam08815
Location:1040 → 1087

Nuc_rec_co-act; Nuclear receptor coactivator

pfam08832
Location:630 → 714

SRC-1; Steroid receptor coactivator

pfam14598
Location:265 → 385

PAS_11; PAS domain

pfam16279
Location:733 → 820

DUF4927; Domain of unknown function (DUF4927)

pfam16665
Location:469 → 582

NCOA_u2; Unstructured region on nuclear receptor coactivator protein
NM_006534.4 → NP_006525.2 nuclear receptor coactivator 3 isoform b

See identical proteins and their annotated locations for NP_006525.2

Status: REVIEWED

Description

Transcript Variant: This variant (2) uses an alternate in-frame splice site compared to variant 1, resulting in a shorter isoform (b) compared to isoform a.

Source sequence(s)

AL021394, AL034418, AL353777

Consensus CDS

CCDS13406.1

UniProtKB/TrEMBL

Q0IIN7

Related

ENSP00000361073.1, ENST00000372004.7

Conserved Domains (9) summary

smart00353
Location:34 → 88

HLH; helix loop helix domain

smart00091
Location:116 → 173

PAS; PAS domain

pfam07469
Location:1287 → 1344

DUF1518; Domain of unknown function (DUF1518)

pfam08815
Location:1045 → 1092

Nuc_rec_co-act; Nuclear receptor coactivator

pfam08832
Location:620 → 704

SRC-1; Steroid receptor coactivator

pfam09606
Location:1077 → 1364

Med15; ARC105 or Med15 subunit of Mediator complex non-fungal

pfam14598
Location:265 → 375

PAS_11; PAS domain

pfam16279
Location:723 → 810

DUF4927; Domain of unknown function (DUF4927)

pfam16665
Location:459 → 572

NCOA_u2; Unstructured region on nuclear receptor coactivator protein
NM_181659.3 → NP_858045.1 nuclear receptor coactivator 3 isoform a

See identical proteins and their annotated locations for NP_858045.1

Status: REVIEWED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).

Source sequence(s)

AL021394, AL034418, AL353777

Consensus CDS

CCDS13407.1

UniProtKB/Swiss-Prot

A4LAZ5, Q0VF45, Q5JYD9, Q5JYE0, Q9BR49, Q9UPC9, Q9UPG4, Q9UPG7, Q9Y6Q9

UniProtKB/TrEMBL

A8K0W8

Related

ENSP00000361066.3, ENST00000371998.8

Conserved Domains (9) summary

smart00353
Location:34 → 88

HLH; helix loop helix domain

smart00091
Location:116 → 173

PAS; PAS domain

pfam00989
Location:117 → 215

PAS; PAS fold

pfam07469
Location:1291 → 1348

DUF1518; Domain of unknown function (DUF1518)

pfam08815
Location:1045 → 1092

Nuc_rec_co-act; Nuclear receptor coactivator

pfam08832
Location:620 → 704

SRC-1; Steroid receptor coactivator

pfam14598
Location:265 → 375

PAS_11; PAS domain

pfam16279
Location:723 → 810

DUF4927; Domain of unknown function (DUF4927)

pfam16665
Location:459 → 572

NCOA_u2; Unstructured region on nuclear receptor coactivator protein