BNIP3 BCL2 interacting protein 3 [Homo sapiens (human)] - Gene

Summary

Official Symbol: BNIP3provided by HGNC
Official Full Name: BCL2 interacting protein 3provided by HGNC
Primary source: HGNC:HGNC:1084
See related: Ensembl:ENSG00000176171 MIM:603293; AllianceGenome:HGNC:1084
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: NIP3; HABON
Summary: This gene is encodes a mitochondrial protein that contains a BH3 domain and acts as a pro-apoptotic factor. The encoded protein interacts with anti-apoptotic proteins, including the E1B 19 kDa protein and Bcl2. This gene is silenced in tumors by DNA methylation. [provided by RefSeq, Dec 2014]
Expression: Ubiquitous expression in liver (RPKM 54.5), fat (RPKM 52.6) and 24 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 10q26.3

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	10	NC_000010.11 (131967684..131981923, complement)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	10	NC_060934.1 (132907935..132922186, complement)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	10	NC_000010.10 (133781188..133795427, complement)

Chromosome 10 - NC_000010.11 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
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?

PPTC7 antagonizes mitophagy by promoting BNIP3 and NIX degradation via SCF[FBXL4].
Title: PPTC7 antagonizes mitophagy by promoting BNIP3 and NIX degradation via SCF(FBXL4).
Methionine deficiency promoted mitophagy via lncRNA PVT1-mediated promoter demethylation of BNIP3 in gastric cancer.
Title: Methionine deficiency promoted mitophagy via lncRNA PVT1-mediated promoter demethylation of BNIP3 in gastric cancer.
Mitophagy mediated by BNIP3 and NIX protects against ferroptosis by downregulating mitochondrial reactive oxygen species.
Title: Mitophagy mediated by BNIP3 and NIX protects against ferroptosis by downregulating mitochondrial reactive oxygen species.
The Mst1/2-BNIP3 axis is required for mitophagy induction and neuronal viability under mitochondrial stress.
Title: The Mst1/2-BNIP3 axis is required for mitophagy induction and neuronal viability under mitochondrial stress.
Excessive BNIP3- and BNIP3L-dependent mitophagy underlies the pathogenesis of FBXL4-mutated mitochondrial DNA depletion syndrome.
Title: Excessive BNIP3- and BNIP3L-dependent mitophagy underlies the pathogenesis of FBXL4-mutated mitochondrial DNA depletion syndrome.
BNIP3 and DAPK1 methylation in peripheral blood leucocytes are noninvasive biomarkers for gastric cancer.
Title: BNIP3 and DAPK1 methylation in peripheral blood leucocytes are noninvasive biomarkers for gastric cancer.
CD30 protects EBV-positive diffuse large B-cell lymphoma cells against mitochondrial dysfunction through BNIP3-mediated mitophagy.
Title: CD30 protects EBV-positive diffuse large B-cell lymphoma cells against mitochondrial dysfunction through BNIP3-mediated mitophagy.
Autophagy induced by hypoxia in pulpitis is mediated by HIF-1alpha/BNIP3.
Title: Autophagy induced by hypoxia in pulpitis is mediated by HIF-1α/BNIP3.
Mitochondrial protein BNIP3 regulates Chikungunya virus replication in the early stages of infection.
Title: Mitochondrial protein BNIP3 regulates Chikungunya virus replication in the early stages of infection.
Uncovering the Novel Role of NR1D1 in Regulating BNIP3-Mediated Mitophagy in Ulcerative Colitis.
Title: Uncovering the Novel Role of NR1D1 in Regulating BNIP3-Mediated Mitophagy in Ulcerative Colitis.

Submit: New GeneRIF Correction See all GeneRIFs (160)

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

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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Protein interactions

Protein	Gene	Interaction	Pubs
Envelope surface glycoprotein gp120	env	HIV-1 gp120 downregulates the expression of BCL2/adenovirus E1B 19kDa interacting protein 3 (BNIP3) in human B cells	PubMed
Vpr	vpr	Treatment of human primary astrocytes with HIV-1 Vpr downregulates expression of eleven genes, BNIP3, CYGB, DUOX2, DUSP1, FOXM1, GAPDH, HPRT1, MT3, MTL5, PTGS2, and SCARA3	PubMed
	vpr	Overexpression of BNIP3 is induced by HIV-1 Vpr in the transfected 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

G54089 (e-PCR)
- UniSTS:109326

BNIP3_1789 (e-PCR)
- UniSTS:277039

D8S2279 (e-PCR)
- UniSTS:473907

RH80015 (e-PCR)
- UniSTS:88385

STS-R06072 (e-PCR)
- UniSTS:847

RH71202 (e-PCR)
- UniSTS:41823

RH70571 (e-PCR)
- UniSTS:29292

GDB:335751 (e-PCR)
- UniSTS:156601

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables GTPase binding	IPI Inferred from Physical Interaction more info	PubMed
enables endoplasmic reticulum-autophagosome adaptor activity	IDA Inferred from Direct Assay more info	PubMed
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables mitochondrion autophagosome adaptor activity	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein homodimerization activity	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in autophagic cell death	IEA Inferred from Electronic Annotation more info
involved_in autophagy of mitochondrion	NAS Non-traceable Author Statement more info	PubMed
involved_in brown fat cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in cardiac muscle cell apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in cellular response to cobalt ion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cellular response to hydrogen peroxide	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cellular response to hypoxia	IGI Inferred from Genetic Interaction more info	PubMed
involved_in cellular response to hypoxia	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cellular response to mechanical stimulus	IEP Inferred from Expression Pattern more info
involved_in cerebral cortex development	IEA Inferred from Electronic Annotation more info
involved_in defense response to virus	IDA Inferred from Direct Assay more info	PubMed
involved_in granzyme-mediated programmed cell death signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in intrinsic apoptotic signaling pathway in response to hypoxia	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mitochondrial fragmentation involved in apoptotic process	IDA Inferred from Direct Assay more info	PubMed
involved_in mitochondrial outer membrane permeabilization	IBA Inferred from Biological aspect of Ancestor more info
involved_in mitochondrial outer membrane permeabilization	IDA Inferred from Direct Assay more info	PubMed
involved_in mitochondrial protein catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mitophagy	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of apoptotic process	TAS Traceable Author Statement more info	PubMed
involved_in negative regulation of membrane potential	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of mitochondrial fusion	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of mitochondrial membrane permeability involved in apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of mitochondrial membrane potential	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of programmed cell death	IGI Inferred from Genetic Interaction more info	PubMed
involved_in negative regulation of reactive oxygen species metabolic process	IEA Inferred from Electronic Annotation more info
involved_in neuron apoptotic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in oligodendrocyte differentiation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of apoptotic process	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of autophagy	TAS Traceable Author Statement more info	PubMed
involved_in positive regulation of autophagy of mitochondrion	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of cardiac muscle cell apoptotic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of macroautophagy	IGI Inferred from Genetic Interaction more info	PubMed
involved_in positive regulation of mitochondrial calcium ion concentration	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of mitochondrial fission	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of programmed cell death	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of programmed cell death	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of protein-containing complex disassembly	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of release of cytochrome c from mitochondria	IDA Inferred from Direct Assay more info	PubMed
involved_in reactive oxygen species metabolic process	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of aerobic respiration	IEA Inferred from Electronic Annotation more info
involved_in regulation of mitochondrial membrane permeability	IDA Inferred from Direct Assay more info	PubMed
involved_in response to axon injury	IEA Inferred from Electronic Annotation more info
involved_in response to bacterium	IEA Inferred from Electronic Annotation more info
involved_in response to hyperoxia	IEA Inferred from Electronic Annotation more info
involved_in response to hypoxia	ISS Inferred from Sequence or Structural Similarity more info
involved_in response to oxygen-glucose deprivation	IEA Inferred from Electronic Annotation more info
involved_in reticulophagy	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
located_in dendrite	ISS Inferred from Sequence or Structural Similarity more info
is_active_in endoplasmic reticulum	IBA Inferred from Biological aspect of Ancestor more info
located_in endoplasmic reticulum	NAS Non-traceable Author Statement more info	PubMed
is_active_in endoplasmic reticulum membrane	IDA Inferred from Direct Assay more info	PubMed
located_in mitochondrial membrane	IDA Inferred from Direct Assay more info	PubMed
located_in mitochondrial membrane	IMP Inferred from Mutant Phenotype more info	PubMed
is_active_in mitochondrial outer membrane	IBA Inferred from Biological aspect of Ancestor more info
is_active_in mitochondrial outer membrane	IDA Inferred from Direct Assay more info	PubMed
located_in mitochondrial outer membrane	IDA Inferred from Direct Assay more info	PubMed
located_in mitochondrion	HTP more info	PubMed
located_in mitochondrion	IDA Inferred from Direct Assay more info	PubMed
located_in mitochondrion	TAS Traceable Author Statement more info	PubMed
is_active_in nuclear envelope	IBA Inferred from Biological aspect of Ancestor more info
located_in nuclear envelope	IDA Inferred from Direct Assay more info	PubMed
located_in nucleoplasm	ISS Inferred from Sequence or Structural Similarity more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info
located_in postsynaptic density	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: BCL2/adenovirus E1B 19 kDa protein-interacting protein 3

Names: BCL2/adenovirus E1B 19kDa interacting protein 3; BCL2/adenovirus E1B interacting protein 3; Hypoxia-Activated BNIP3 Overlapping Non-coding RNA; nineteen kD interacting protein-3

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.

mRNA and Protein(s)

NM_004052.4 → NP_004043.4 BCL2/adenovirus E1B 19 kDa protein-interacting protein 3

Status: REVIEWED

Source sequence(s)

AL162274, AL732395

Consensus CDS

CCDS7663.3

UniProtKB/Swiss-Prot

O14620, Q12983, Q96GP0

UniProtKB/TrEMBL

Q53HF4

Related

ENSP00000357625.6, ENST00000368636.9

Conserved Domains (1) summary

pfam06553
Location:9 → 192

BNIP3