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HNRNPD heterogeneous nuclear ribonucleoprotein D [ Homo sapiens (human) ]

Gene ID: 3184, updated on 23-Apr-2019

Summary

Official Symbol
HNRNPDprovided by HGNC
Official Full Name
heterogeneous nuclear ribonucleoprotein Dprovided by HGNC
Primary source
HGNC:HGNC:5036
See related
Ensembl:ENSG00000138668 MIM:601324
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
P37; AUF1; AUF1A; HNRPD; hnRNPD0
Summary
This gene belongs to the subfamily of ubiquitously expressed heterogeneous nuclear ribonucleoproteins (hnRNPs). The hnRNPs are nucleic acid binding proteins and they complex with heterogeneous nuclear RNA (hnRNA). These proteins are associated with pre-mRNAs in the nucleus and appear to influence pre-mRNA processing and other aspects of mRNA metabolism and transport. While all of the hnRNPs are present in the nucleus, some seem to shuttle between the nucleus and the cytoplasm. The hnRNP proteins have distinct nucleic acid binding properties. The protein encoded by this gene has two repeats of quasi-RRM domains that bind to RNAs. It localizes to both the nucleus and the cytoplasm. This protein is implicated in the regulation of mRNA stability. Alternative splicing of this gene results in four transcript variants. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in lymph node (RPKM 80.4), bone marrow (RPKM 72.5) and 25 other tissues See more
Orthologs

Genomic context

See HNRNPD in Genome Data Viewer
Location:
4q21.22
Exon count:
9
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 4 NC_000004.12 (82353314..82373996, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (83274467..83295149, complement)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105377308 Neighboring gene uncharacterized LOC105377307 Neighboring gene bridging integrator 2 pseudogene 1 Neighboring gene uncharacterized LOC101928963 Neighboring gene immunoglobulin (CD79A) binding protein 1 pseudogene 4

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env Tandem affinity purification and mass spectrometry analysis identify heterogeneous nuclear ribonucleoprotein D (HNRNPD), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Envelope surface glycoprotein gp160, precursor env Depletion of hnRNP D decreases HIV-1 Env synthesis PubMed
Gag-Pol gag-pol Tandem affinity purification and mass spectrometry analysis identify heterogeneous nuclear ribonucleoprotein D (HNRNPD), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Nef nef Tandem affinity purification and mass spectrometry analysis identify heterogeneous nuclear ribonucleoprotein D (HNRNPD), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Pr55(Gag) gag Depletion of hnRNP D reduces the accumulation of HIV-1 unspliced and singly spliced RNAs and decreases synthesis of HIV-1 Gag in the cytoplasm PubMed
gag Overexpression of hnRNP D isoform d p37 and isoform c p40 suppress HIV-1 Gag synthesis, while overexpression of isoform a p45 and isoform b p42 increase HIV-1 Gag synthesis PubMed
gag hnRNP D protein undergoes relocalization to the cytoplasm upon HIV-1 infection and is associated with HIV-1 Gag protein PubMed
Rev rev HIV-1 Rev interacting protein, heterogeneous nuclear ribonucleoprotein D (HNRNPD), is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells. The interaction of Rev with HNRNPD is increased by RRE PubMed
Vpr vpr A stable-isotope labeling by amino acids in cell culture coupled with mass spectrometry-based proteomics identifies downregulation of heterogeneous nuclear ribonucleoprotein D (HNRNPD) expression by HIV-1 Vpr in Vpr transduced macrophages PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • AUF1 (hnRNP D0) binds and destabilizes mRNA, organism-specific biosystem (from REACTOME)
    AUF1 (hnRNP D0) binds and destabilizes mRNA, organism-specific biosystemAUF1 (hnRNP D0) dimers bind U-rich regions of AU-rich elements (AREs) in the 3' untranslated regions of mRNAs. The binding causes AUF1 dimers to assemble into higher order tetrameric complexes. Dipho...
  • Circadian rythm related genes, organism-specific biosystem (from WikiPathways)
    Circadian rythm related genes, organism-specific biosystemThis is currently not a pathway but a list of circadian rhythm related genes and proteins. The source for this information is the gene ontology. The genes and proteins were filtered for "circadian rh...
  • Gene Expression, organism-specific biosystem (from REACTOME)
    Gene Expression, organism-specific biosystemGene Expression covers the pathways by which genomic DNA is transcribed to yield RNA, the regulation of these transcription processes, and the pathways by which newly-made RNA Transcripts are process...
  • Processing of Capped Intron-Containing Pre-mRNA, organism-specific biosystem (from REACTOME)
    Processing of Capped Intron-Containing Pre-mRNA, organism-specific biosystemCo-transcriptional pre-mRNA splicing is not obligatory. Pre-mRNA splicing begins co-transcriptionally and often continues post-transcriptionally. Human genes contain an average of nine introns per ge...
  • Regulation of mRNA stability by proteins that bind AU-rich elements, organism-specific biosystem (from REACTOME)
    Regulation of mRNA stability by proteins that bind AU-rich elements, organism-specific biosystemRNA elements rich in adenine and uracil residues (AU-rich elements) bind specific proteins which either target the RNA for degradation or, more rarely, stabilize the RNA. The activity of the AU-eleme...
  • mRNA Processing, organism-specific biosystem (from WikiPathways)
    mRNA Processing, organism-specific biosystemThis process describes the conversion of precursor messenger RNA into mature messenger RNA (mRNA). The pre-mRNA molecule undergoes three main modifications. These modifications are 5' capping, 3' po...
  • mRNA Splicing, organism-specific biosystem (from REACTOME)
    mRNA Splicing, organism-specific biosystemThe process in which excision of introns from the primary transcript of messenger RNA (mRNA) is followed by ligation of the two exon termini exposed by removal of each intron, is called mRNA splicing...
  • mRNA Splicing - Major Pathway, organism-specific biosystem (from REACTOME)
    mRNA Splicing - Major Pathway, organism-specific biosystemThe splicing of pre-mRNA occurs within a large, very dynamic complex, designated the 'spliceosome'. The 50-60S spliceosomes are estimated to be 40-60 nm in diameter, and have molecular weights in the...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding HDA PubMed 
RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
RNA binding NAS
Non-traceable Author Statement
more info
PubMed 
chromatin binding IEA
Inferred from Electronic Annotation
more info
 
histone deacetylase binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
telomeric DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
transcription factor binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
3'-UTR-mediated mRNA destabilization IEA
Inferred from Electronic Annotation
more info
 
RNA catabolic process TAS
Traceable Author Statement
more info
PubMed 
RNA metabolic process TAS
Traceable Author Statement
more info
 
RNA processing TAS
Traceable Author Statement
more info
PubMed 
cellular response to amino acid stimulus IEA
Inferred from Electronic Annotation
more info
 
cellular response to estradiol stimulus IEA
Inferred from Electronic Annotation
more info
 
cellular response to nitric oxide IEA
Inferred from Electronic Annotation
more info
 
cellular response to putrescine IEA
Inferred from Electronic Annotation
more info
 
cerebellum development IEA
Inferred from Electronic Annotation
more info
 
circadian regulation of translation IMP
Inferred from Mutant Phenotype
more info
PubMed 
hepatocyte dedifferentiation IEA
Inferred from Electronic Annotation
more info
 
liver development IEA
Inferred from Electronic Annotation
more info
 
mRNA splicing, via spliceosome TAS
Traceable Author Statement
more info
 
mRNA stabilization IEA
Inferred from Electronic Annotation
more info
 
positive regulation of telomerase RNA reverse transcriptase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of telomere capping ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of transcription, DNA-templated NAS
Non-traceable Author Statement
more info
PubMed 
positive regulation of translation IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of circadian rhythm IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of mRNA stability TAS
Traceable Author Statement
more info
 
regulation of telomere maintenance ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of transcription, DNA-templated NAS
Non-traceable Author Statement
more info
PubMed 
response to calcium ion IEA
Inferred from Electronic Annotation
more info
 
response to electrical stimulus IEA
Inferred from Electronic Annotation
more info
 
response to rapamycin IEA
Inferred from Electronic Annotation
more info
 
response to sodium phosphate IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cytosol TAS
Traceable Author Statement
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus NAS
Non-traceable Author Statement
more info
PubMed 
ribonucleoprotein complex IDA
Inferred from Direct Assay
more info
PubMed 
synapse IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
heterogeneous nuclear ribonucleoprotein D0
Names
ARE-binding protein AUFI, type A
AU-rich element RNA binding protein 1, 37kDa
hnRNP D0

NCBI Reference Sequences (RefSeq)

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

  1. NG_029103.1 RefSeqGene

    Range
    5001..25683
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001003810.1NP_001003810.1  heterogeneous nuclear ribonucleoprotein D0 isoform d

    See identical proteins and their annotated locations for NP_001003810.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) lacks two alternate in-frame segments, compared to variant 1. The resulting isoform (d), also known as p37, is shorter than isoform a.
    Source sequence(s)
    AF039575, BC023977, BF693760, BG180865, BG180941, BG325979, BM832779
    UniProtKB/Swiss-Prot
    Q14103
    Conserved Domains (3) summary
    cd12575
    Location:80153
    RRM1_hnRNPD_like; RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein hnRNP D0, hnRNP A/B, hnRNP DL and similar proteins
    cd12583
    Location:164238
    RRM2_hnRNPD; RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) and similar proteins
    pfam08143
    Location:6078
    CBFNT; CBFNT (NUC161) domain
  2. NM_002138.3NP_002129.2  heterogeneous nuclear ribonucleoprotein D0 isoform c

    See identical proteins and their annotated locations for NP_002129.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks an alternate in-frame segment, compared to variant 1. The resulting isoform (c), also known as p40, is shorter than isoform a.
    Source sequence(s)
    AF039575, BC023977, BF693760, BM825808
    Consensus CDS
    CCDS3590.1
    UniProtKB/Swiss-Prot
    Q14103
    UniProtKB/TrEMBL
    A0A024RDF4
    Related
    ENSP00000313327.6, ENST00000353341.8
    Conserved Domains (3) summary
    cd12575
    Location:99172
    RRM1_hnRNPD_like; RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein hnRNP D0, hnRNP A/B, hnRNP DL and similar proteins
    cd12583
    Location:183257
    RRM2_hnRNPD; RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) and similar proteins
    pfam08143
    Location:6078
    CBFNT; CBFNT (NUC161) domain
  3. NM_031369.2NP_112737.1  heterogeneous nuclear ribonucleoprotein D0 isoform b

    See identical proteins and their annotated locations for NP_112737.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame segment, compared to variant 1. The resulting isoform (b), also known as p42, is shorter than isoform a.
    Source sequence(s)
    AF039575, BC002401, BC023977, BF693760, BG180865, BG180941, BG325979, BM832779
    Consensus CDS
    CCDS3591.1
    UniProtKB/Swiss-Prot
    Q14103
    UniProtKB/TrEMBL
    A0A024RDB4
    Related
    ENSP00000305860.6, ENST00000352301.8
    Conserved Domains (3) summary
    cd12575
    Location:80153
    RRM1_hnRNPD_like; RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein hnRNP D0, hnRNP A/B, hnRNP DL and similar proteins
    cd12583
    Location:164238
    RRM2_hnRNPD; RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) and similar proteins
    pfam08143
    Location:6078
    CBFNT; CBFNT (NUC161) domain
  4. NM_031370.3NP_112738.1  heterogeneous nuclear ribonucleoprotein D0 isoform a

    See identical proteins and their annotated locations for NP_112738.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (a), also known as p45.
    Source sequence(s)
    AC124016, AF039575, BC002401, BC023977, BF693760, BG180865, BG180941, BM825808, BM832779
    Consensus CDS
    CCDS3592.1
    UniProtKB/Swiss-Prot
    Q14103
    UniProtKB/TrEMBL
    A0A024RDF3
    Related
    ENSP00000313199.7, ENST00000313899.12
    Conserved Domains (3) summary
    cd12575
    Location:99172
    RRM1_hnRNPD_like; RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein hnRNP D0, hnRNP A/B, hnRNP DL and similar proteins
    cd12583
    Location:183257
    RRM2_hnRNPD; RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) and similar proteins
    pfam08143
    Location:6078
    CBFNT; CBFNT (NUC161) domain

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000004.12 Reference GRCh38.p12 Primary Assembly

    Range
    82353314..82373996 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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