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Protein

Heterogeneous nuclear ribonucleoprotein D0

Gene

Hnrnpd

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Binds with high affinity to RNA molecules that contain AU-rich elements (AREs) found within the 3'-UTR of many proto-oncogenes and cytokine mRNAs. Also binds to double- and single-stranded DNA sequences in a specific manner and functions a transcription factor. Each of the RNA-binding domains specifically can bind solely to a single-stranded non-monotonous 5'-UUAG-3' sequence and also weaker to the single-stranded 5'-TTAGGG-3' telomeric DNA repeat. Binds RNA oligonucleotides with 5'-UUAGGG-3' repeats more tightly than the telomeric single-stranded DNA 5'-TTAGGG-3' repeats. Binding of RRM1 to DNA inhibits the formation of DNA quadruplex structure which may play a role in telomere elongation. May be involved in translationally coupled mRNA turnover. Implicated with other RNA-binding proteins in the cytoplasmic deadenylation/translational and decay interplay of the FOS mRNA mediated by the major coding-region determinant of instability (mCRD) domain. May play a role in the regulation of the rhythmic expression of circadian clock core genes. Directly binds to the 3'UTR of CRY1 mRNA and induces CRY1 rhythmic translation. May also be involved in the regulation of PER2 translation.By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Ribonucleoprotein

Keywords - Biological processi

Biological rhythms, Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding, RNA-binding

Enzyme and pathway databases

ReactomeiREACT_278878. AUF1 (hnRNP D0) destabilizes mRNA.
REACT_307866. mRNA Splicing - Major Pathway.
REACT_340895. Processing of Capped Intron-Containing Pre-mRNA.

Names & Taxonomyi

Protein namesi
Recommended name:
Heterogeneous nuclear ribonucleoprotein D0
Short name:
hnRNP D0
Alternative name(s):
AU-rich element RNA-binding protein 1
Gene namesi
Name:Hnrnpd
Synonyms:Auf1, Hnrpd
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589 Componenti: Chromosome 5

Organism-specific databases

MGIiMGI:101947. Hnrnpd.

Subcellular locationi

  • Nucleus By similarity
  • Cytoplasm By similarity

  • Note: Localized in cytoplasmic mRNP granules containing untranslated mRNAs. Component of ribonucleosomes. Cytoplasmic localization oscillates diurnally.By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11RemovedBy similarity
Chaini2 – 355354Heterogeneous nuclear ribonucleoprotein D0PRO_0000081850Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei2 – 21N-acetylserineBy similarity
Modified residuei71 – 711PhosphoserineBy similarity
Modified residuei80 – 801PhosphoserineBy similarity
Modified residuei82 – 821PhosphoserineBy similarity
Modified residuei83 – 831Phosphoserine1 Publication
Modified residuei119 – 1191N6-methyllysineBy similarity
Modified residuei127 – 1271PhosphothreonineBy similarity
Modified residuei165 – 1651N6-acetyllysineBy similarity
Modified residuei190 – 1901PhosphoserineBy similarity
Modified residuei193 – 1931PhosphothreonineBy similarity
Modified residuei243 – 2431N6-acetyllysine1 Publication
Modified residuei251 – 2511N6-acetyllysineBy similarity
Modified residuei345 – 3451Dimethylated arginineBy similarity

Post-translational modificationi

Methylated by PRMT1, in an insulin-dependent manner. The PRMT1-mediated methylation regulates its phosphorylation (By similarity).By similarity
Arg-345 is dimethylated, probably to asymmetric dimethylarginine.By similarity

Keywords - PTMi

Acetylation, Methylation, Phosphoprotein

Proteomic databases

MaxQBiQ60668.
PaxDbiQ60668.
PRIDEiQ60668.

PTM databases

PhosphoSiteiQ60668.

Expressioni

Gene expression databases

BgeeiQ60668.
ExpressionAtlasiQ60668. baseline and differential.
GenevisibleiQ60668. MM.

Interactioni

Subunit structurei

Identified in a IGF2BP1-dependent mRNP granule complex containing untranslated mRNAs. Part of a complex associated with the FOS mCRD domain and consisting of PABPC1, PAIP1, CSDE1/UNR and SYNCRIP. Interacts with IGF2BP2. Interacts with GTPBP1. Interacts with EIF4G1; the interaction requires RNA. Interacts with EIF3B and RPS3.By similarity

Binary interactionsi

WithEntry#Exp.IntActNotes
LdhaP061512EBI-299932,EBI-444940

Protein-protein interaction databases

BioGridi198279. 5 interactions.
DIPiDIP-31411N.
IntActiQ60668. 7 interactions.
MINTiMINT-1864708.
STRINGi10090.ENSMUSP00000132735.

Structurei

3D structure databases

ProteinModelPortaliQ60668.
SMRiQ60668. Positions 98-259.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini97 – 17983RRM 1PROSITE-ProRule annotationAdd
BLAST
Domaini182 – 26180RRM 2PROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 2 RRM (RNA recognition motif) domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiCOG0724.
GeneTreeiENSGT00760000118873.
HOGENOMiHOG000234441.
HOVERGENiHBG002295.
InParanoidiQ60668.
KOiK13044.
OMAiTFKDEEP.
OrthoDBiEOG715Q6V.
PhylomeDBiQ60668.
TreeFamiTF314808.

Family and domain databases

Gene3Di3.30.70.330. 2 hits.
InterProiIPR012956. CARG-binding_factor_N.
IPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF08143. CBFNT. 1 hit.
PF00076. RRM_1. 2 hits.
[Graphical view]
SMARTiSM00360. RRM. 2 hits.
[Graphical view]
PROSITEiPS50102. RRM. 2 hits.
[Graphical view]

Sequences (4)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 4 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q60668-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MSEEQFGGDG AAAAATAAVG GSAGEQEGAM VAAAAQGPAA AAGSGSGGGG
60 70 80 90 100
SAAGGTEGGS AEAEGAKIDA SKNEEDEGHS NSSPRHTEAA AAQREEWKMF
110 120 130 140 150
IGGLSWDTTK KDLKDYFSKF GEVVDCTLKL DPITGRSRGF GFVLFKESES
160 170 180 190 200
VDKVMDQKEH KLNGKVIDPK RAKAMKTKEP VKKIFVGGLS PDTPEEKIRE
210 220 230 240 250
YFGGFGEVES IELPMDNKTN KRRGFCFITF KEEEPVKKIM EKKYHNVGLS
260 270 280 290 300
KCEIKVAMSK EQYQQQQQWG SRGGFAGRAR GRGGGPSQNW NQGYSNYWNQ
310 320 330 340 350
GYGNYGYNSQ GYGGYGGYDY TGYNNYYGYG DYSNQQSGYG KVSRRGGHQN

SYKPY
Length:355
Mass (Da):38,354
Last modified:August 4, 2003 - v2
Checksum:i5941DFC6F65B88DF
GO
Isoform 2 (identifier: Q60668-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     74-92: Missing.

Show »
Length:336
Mass (Da):36,377
Checksum:i7DB919DCCEDAFC1C
GO
Isoform 3 (identifier: Q60668-3) [UniParc]FASTAAdd to basket

Also known as: muAUF1-3

The sequence of this isoform differs from the canonical sequence as follows:
     285-334: GPSQNWNQGYSNYWNQGYGNYGYNSQGYGGYGGYDYTGYNNYYGYGDYSN → D

Show »
Length:306
Mass (Da):32,754
Checksum:iB6E5DE4E2D4C2275
GO
Isoform 4 (identifier: Q60668-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     74-92: Missing.
     285-334: GPSQNWNQGYSNYWNQGYGNYGYNSQGYGGYGGYDYTGYNNYYGYGDYSN → D

Note: No experimental confirmation available.
Show »
Length:287
Mass (Da):30,778
Checksum:iE6678C4248543031
GO

Sequence cautioni

The sequence AAA64653.1 differs from that shown.Contaminating sequence.Curated
The sequence AAA64653.1 differs from that shown. Reason: Frameshift at several positions. Curated
The sequence AAA64654.1 differs from that shown.Contaminating sequence.Curated
The sequence AAA64654.1 differs from that shown. Reason: Frameshift at several positions. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti22 – 232SA → G in AAA64653 (PubMed:7959009).Curated
Sequence conflicti35 – 384AQGP → RRA in AAA64654 (PubMed:7959009).Curated
Sequence conflicti35 – 373AQG → RR in AAA64653 (PubMed:7959009).Curated
Sequence conflicti50 – 534GSAA → LCG in AAA64654 (PubMed:7959009).Curated
Sequence conflicti217 – 2171N → K in AAA64654 (PubMed:7959009).Curated
Sequence conflicti227 – 2282FI → ID in AAA64653 (PubMed:7959009).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei74 – 9219Missing in isoform 2 and isoform 4. CuratedVSP_007940Add
BLAST
Alternative sequencei285 – 33450GPSQN…GDYSN → D in isoform 3 and isoform 4. 2 PublicationsVSP_007941Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U11273 mRNA. Translation: AAA64653.1. Sequence problems.
U11274 mRNA. Translation: AAA64654.1. Sequence problems.
BC011172 mRNA. Translation: AAH11172.2.
BC049098 mRNA. Translation: AAH49098.1.
CCDSiCCDS39180.1. [Q60668-2]
CCDS39181.1. [Q60668-3]
CCDS39182.1. [Q60668-1]
CCDS51571.1. [Q60668-4]
PIRiI49069.
I49070.
RefSeqiNP_001070733.1. NM_001077265.2. [Q60668-1]
NP_001070734.1. NM_001077266.2.
NP_001070735.1. NM_001077267.2.
NP_031542.2. NM_007516.3. [Q60668-3]
XP_006534798.1. XM_006534735.2. [Q60668-1]
UniGeneiMm.150231.

Genome annotation databases

EnsembliENSMUST00000019128; ENSMUSP00000019128; ENSMUSG00000000568. [Q60668-3]
ENSMUST00000172361; ENSMUSP00000132735; ENSMUSG00000000568. [Q60668-1]
GeneIDi11991.
KEGGimmu:11991.
UCSCiuc008ygt.1. mouse. [Q60668-1]
uc008ygu.1. mouse. [Q60668-3]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U11273 mRNA. Translation: AAA64653.1. Sequence problems.
U11274 mRNA. Translation: AAA64654.1. Sequence problems.
BC011172 mRNA. Translation: AAH11172.2.
BC049098 mRNA. Translation: AAH49098.1.
CCDSiCCDS39180.1. [Q60668-2]
CCDS39181.1. [Q60668-3]
CCDS39182.1. [Q60668-1]
CCDS51571.1. [Q60668-4]
PIRiI49069.
I49070.
RefSeqiNP_001070733.1. NM_001077265.2. [Q60668-1]
NP_001070734.1. NM_001077266.2.
NP_001070735.1. NM_001077267.2.
NP_031542.2. NM_007516.3. [Q60668-3]
XP_006534798.1. XM_006534735.2. [Q60668-1]
UniGeneiMm.150231.

3D structure databases

ProteinModelPortaliQ60668.
SMRiQ60668. Positions 98-259.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi198279. 5 interactions.
DIPiDIP-31411N.
IntActiQ60668. 7 interactions.
MINTiMINT-1864708.
STRINGi10090.ENSMUSP00000132735.

PTM databases

PhosphoSiteiQ60668.

Proteomic databases

MaxQBiQ60668.
PaxDbiQ60668.
PRIDEiQ60668.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000019128; ENSMUSP00000019128; ENSMUSG00000000568. [Q60668-3]
ENSMUST00000172361; ENSMUSP00000132735; ENSMUSG00000000568. [Q60668-1]
GeneIDi11991.
KEGGimmu:11991.
UCSCiuc008ygt.1. mouse. [Q60668-1]
uc008ygu.1. mouse. [Q60668-3]

Organism-specific databases

CTDi3184.
MGIiMGI:101947. Hnrnpd.

Phylogenomic databases

eggNOGiCOG0724.
GeneTreeiENSGT00760000118873.
HOGENOMiHOG000234441.
HOVERGENiHBG002295.
InParanoidiQ60668.
KOiK13044.
OMAiTFKDEEP.
OrthoDBiEOG715Q6V.
PhylomeDBiQ60668.
TreeFamiTF314808.

Enzyme and pathway databases

ReactomeiREACT_278878. AUF1 (hnRNP D0) destabilizes mRNA.
REACT_307866. mRNA Splicing - Major Pathway.
REACT_340895. Processing of Capped Intron-Containing Pre-mRNA.

Miscellaneous databases

ChiTaRSiHnrnpd. mouse.
NextBioi280159.
PROiQ60668.
SOURCEiSearch...

Gene expression databases

BgeeiQ60668.
ExpressionAtlasiQ60668. baseline and differential.
GenevisibleiQ60668. MM.

Family and domain databases

Gene3Di3.30.70.330. 2 hits.
InterProiIPR012956. CARG-binding_factor_N.
IPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF08143. CBFNT. 1 hit.
PF00076. RRM_1. 2 hits.
[Graphical view]
SMARTiSM00360. RRM. 2 hits.
[Graphical view]
PROSITEiPS50102. RRM. 2 hits.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Characterization of cDNAs encoding the murine A+U-rich RNA-binding protein AUF1."
    Ehrenman K., Long L., Wagner B.J., Brewer G.
    Gene 149:315-319(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 1-228 (ISOFORMS 2/4), NUCLEOTIDE SEQUENCE [MRNA] OF 25-355 (ISOFORM 3).
    Strain: BALB/c.
    Tissue: Embryo.
  2. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 3), NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 5-355 (ISOFORM 1).
    Tissue: Brain and Salivary gland.
  3. Lubec G., Sunyer B., Chen W.-Q.
    Submitted (JAN-2009) to UniProtKB
    Cited for: PROTEIN SEQUENCE OF 184-197, IDENTIFICATION BY MASS SPECTROMETRY.
    Strain: OF1.
    Tissue: Hippocampus.
  4. "The phagosomal proteome in interferon-gamma-activated macrophages."
    Trost M., English L., Lemieux S., Courcelles M., Desjardins M., Thibault P.
    Immunity 30:143-154(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-83, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  5. "SIRT5-mediated lysine desuccinylation impacts diverse metabolic pathways."
    Park J., Chen Y., Tishkoff D.X., Peng C., Tan M., Dai L., Xie Z., Zhang Y., Zwaans B.M., Skinner M.E., Lombard D.B., Zhao Y.
    Mol. Cell 50:919-930(2013) [PubMed] [Europe PMC] [Abstract]
    Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT LYS-243, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Embryonic fibroblast.

Entry informationi

Entry nameiHNRPD_MOUSE
AccessioniPrimary (citable) accession number: Q60668
Secondary accession number(s): Q60667, Q80ZJ0, Q91X94
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 4, 2003
Last sequence update: August 4, 2003
Last modified: June 24, 2015
This is version 145 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.