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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

ReactomeiR-MMU-450408. AUF1 (hnRNP D0) binds and destabilizes mRNA.
R-MMU-72163. mRNA Splicing - Major Pathway.
R-MMU-72203. 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
Proteomesi
  • UP000000589 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)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedBy similarity
ChainiPRO_00000818502 – 355Heterogeneous nuclear ribonucleoprotein D0Add BLAST354

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylserineBy similarity1
Modified residuei71PhosphoserineBy similarity1
Modified residuei80PhosphoserineCombined sources1
Modified residuei82PhosphoserineBy similarity1
Modified residuei83PhosphoserineCombined sources1
Modified residuei119N6-methyllysineBy similarity1
Modified residuei127PhosphothreonineBy similarity1
Modified residuei165N6-acetyllysineBy similarity1
Modified residuei190PhosphoserineCombined sources1
Modified residuei193PhosphothreonineCombined sources1
Cross-linki197Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Modified residuei243N6-acetyllysineCombined sources1
Modified residuei251N6-acetyllysineBy similarity1
Modified residuei271PhosphoserineBy similarity1
Modified residuei272Omega-N-methylarginineCombined sources1
Modified residuei278Omega-N-methylarginineCombined sources1
Modified residuei280Omega-N-methylarginineBy similarity1
Modified residuei282Omega-N-methylarginineCombined sources1
Modified residuei345Asymmetric dimethylarginine; alternateCombined sources1
Modified residuei345Dimethylated arginine; alternateBy similarity1
Modified residuei345Omega-N-methylarginine; alternateCombined sources1
Isoform 4 (identifier: Q60668-4)
Modified residuei261Omega-N-methylarginineCombined sources1
Modified residuei263Omega-N-methylarginineCombined sources1
Isoform 3 (identifier: Q60668-3)
Modified residuei280Omega-N-methylarginineCombined sources1
Modified residuei282Omega-N-methylarginineCombined sources1

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, Isopeptide bond, Methylation, Phosphoprotein, Ubl conjugation

Proteomic databases

PaxDbiQ60668.
PeptideAtlasiQ60668.
PRIDEiQ60668.

PTM databases

iPTMnetiQ60668.
PhosphoSitePlusiQ60668.
SwissPalmiQ60668.

Expressioni

Gene expression databases

BgeeiENSMUSG00000000568.
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. 6 interactors.
DIPiDIP-31411N.
IntActiQ60668. 8 interactors.
MINTiMINT-1864708.
STRINGi10090.ENSMUSP00000132735.

Structurei

3D structure databases

ProteinModelPortaliQ60668.
SMRiQ60668.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini97 – 179RRM 1PROSITE-ProRule annotationAdd BLAST83
Domaini182 – 261RRM 2PROSITE-ProRule annotationAdd BLAST80

Sequence similaritiesi

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

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG0118. Eukaryota.
COG0724. LUCA.
GeneTreeiENSGT00760000118873.
HOGENOMiHOG000234441.
HOVERGENiHBG002295.
InParanoidiQ60668.
KOiK13044.
OMAiTFKDEEP.
OrthoDBiEOG091G1CPI.
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]
SUPFAMiSSF54928. SSF54928. 2 hits.
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.Combined sources
Show »
Length:287
Mass (Da):30,778
Checksum:iE6678C4248543031
GO

Sequence cautioni

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

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti22 – 23SA → G in AAA64653 (PubMed:7959009).Curated2
Sequence conflicti35 – 38AQGP → RRA in AAA64654 (PubMed:7959009).Curated4
Sequence conflicti35 – 37AQG → RR in AAA64653 (PubMed:7959009).Curated3
Sequence conflicti50 – 53GSAA → LCG in AAA64654 (PubMed:7959009).Curated4
Sequence conflicti217N → K in AAA64654 (PubMed:7959009).Curated1
Sequence conflicti227 – 228FI → ID in AAA64653 (PubMed:7959009).Curated2

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_00794074 – 92Missing in isoform 2 and isoform 4. CuratedAdd BLAST19
Alternative sequenceiVSP_007941285 – 334GPSQN…GDYSN → D in isoform 3 and isoform 4. 2 PublicationsAdd BLAST50

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_006534735.3. [Q60668-1]
UniGeneiMm.150231.

Genome annotation databases

EnsembliENSMUST00000019128; ENSMUSP00000019128; ENSMUSG00000000568. [Q60668-3]
ENSMUST00000172361; ENSMUSP00000132735; ENSMUSG00000000568. [Q60668-1]
GeneIDi11991.
KEGGimmu:11991.
UCSCiuc008ygt.2. mouse. [Q60668-1]
uc008ygu.2. 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_006534735.3. [Q60668-1]
UniGeneiMm.150231.

3D structure databases

ProteinModelPortaliQ60668.
SMRiQ60668.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi198279. 6 interactors.
DIPiDIP-31411N.
IntActiQ60668. 8 interactors.
MINTiMINT-1864708.
STRINGi10090.ENSMUSP00000132735.

PTM databases

iPTMnetiQ60668.
PhosphoSitePlusiQ60668.
SwissPalmiQ60668.

Proteomic databases

PaxDbiQ60668.
PeptideAtlasiQ60668.
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.2. mouse. [Q60668-1]
uc008ygu.2. mouse. [Q60668-3]

Organism-specific databases

CTDi3184.
MGIiMGI:101947. Hnrnpd.

Phylogenomic databases

eggNOGiKOG0118. Eukaryota.
COG0724. LUCA.
GeneTreeiENSGT00760000118873.
HOGENOMiHOG000234441.
HOVERGENiHBG002295.
InParanoidiQ60668.
KOiK13044.
OMAiTFKDEEP.
OrthoDBiEOG091G1CPI.
PhylomeDBiQ60668.
TreeFamiTF314808.

Enzyme and pathway databases

ReactomeiR-MMU-450408. AUF1 (hnRNP D0) binds and destabilizes mRNA.
R-MMU-72163. mRNA Splicing - Major Pathway.
R-MMU-72203. Processing of Capped Intron-Containing Pre-mRNA.

Miscellaneous databases

ChiTaRSiHnrnpd. mouse.
PROiQ60668.
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000000568.
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]
SUPFAMiSSF54928. SSF54928. 2 hits.
PROSITEiPS50102. RRM. 2 hits.
[Graphical view]
ProtoNetiSearch...

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: November 30, 2016
This is version 158 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

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 one 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.