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Q60668

- HNRPD_MOUSE

UniProt

Q60668 - HNRPD_MOUSE

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Protein
Heterogeneous nuclear ribonucleoprotein D0
Gene
Hnrnpd, Auf1, Hnrpd
Organism
Mus musculus (Mouse)
Status
Reviewed - 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

  1. RNA binding Source: UniProtKB
  2. nucleotide binding Source: InterPro
  3. protein binding Source: IntAct
  4. telomeric DNA binding Source: UniProtKB

GO - Biological processi

  1. circadian regulation of translation Source: UniProtKB
  2. positive regulation of translation Source: UniProtKB
  3. regulation of circadian rhythm Source: UniProtKB
  4. regulation of mRNA stability Source: MGI
  5. regulation of transcription, DNA-templated Source: UniProtKB-KW
  6. transcription, DNA-templated Source: UniProtKB-KW
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_198693. AUF1 (hnRNP D0) destabilizes 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: 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

  1. cytoplasm Source: UniProtKB-SubCell
  2. nucleus Source: UniProtKB-SubCell
  3. ribonucleoprotein complex Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 355355Heterogeneous nuclear ribonucleoprotein D0
PRO_0000081850Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei71 – 711Phosphoserine By similarity
Modified residuei80 – 801Phosphoserine By similarity
Modified residuei82 – 821Phosphoserine By similarity
Modified residuei83 – 831Phosphoserine1 Publication
Modified residuei119 – 1191N6-methyllysine By similarity
Modified residuei165 – 1651N6-acetyllysine By similarity
Modified residuei190 – 1901Phosphoserine By similarity
Modified residuei193 – 1931Phosphothreonine By similarity
Modified residuei243 – 2431N6-acetyllysine1 Publication
Modified residuei251 – 2511N6-acetyllysine By similarity
Modified residuei345 – 3451Dimethylated arginine By similarity

Post-translational modificationi

Methylated by PRMT1, in an insulin dependent manner. The PRMT1-mediated methylation regulates its phosphorylation By similarity.

Keywords - PTMi

Acetylation, Methylation, Phosphoprotein

Proteomic databases

MaxQBiQ60668.
PaxDbiQ60668.
PRIDEiQ60668.

PTM databases

PhosphoSiteiQ60668.

Expressioni

Gene expression databases

ArrayExpressiQ60668.
BgeeiQ60668.
GenevestigatoriQ60668.

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.ENSMUSP00000019128.

Structurei

3D structure databases

ProteinModelPortaliQ60668.
SMRiQ60668. Positions 98-259.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini97 – 17983RRM 1
Add
BLAST
Domaini182 – 26180RRM 2
Add
BLAST

Sequence similaritiesi

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiCOG0724.
GeneTreeiENSGT00730000110184.
HOGENOMiHOG000234441.
HOVERGENiHBG002295.
InParanoidiQ60668.
KOiK13044.
OMAiRGGPNQN.
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.

This entry describes 4 isoformsi produced by alternative splicing. Align

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

MSEEQFGGDG AAAAATAAVG GSAGEQEGAM VAAAAQGPAA AAGSGSGGGG    50
SAAGGTEGGS AEAEGAKIDA SKNEEDEGHS NSSPRHTEAA AAQREEWKMF 100
IGGLSWDTTK KDLKDYFSKF GEVVDCTLKL DPITGRSRGF GFVLFKESES 150
VDKVMDQKEH KLNGKVIDPK RAKAMKTKEP VKKIFVGGLS PDTPEEKIRE 200
YFGGFGEVES IELPMDNKTN KRRGFCFITF KEEEPVKKIM EKKYHNVGLS 250
KCEIKVAMSK EQYQQQQQWG SRGGFAGRAR GRGGGPSQNW NQGYSNYWNQ 300
GYGNYGYNSQ GYGGYGGYDY TGYNNYYGYG DYSNQQSGYG KVSRRGGHQN 350
SYKPY 355
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. Reason: Contaminating sequence.
The sequence AAA64654.1 differs from that shown. Reason: Contaminating sequence.
The sequence AAA64653.1 differs from that shown. Reason: Frameshift at several positions.
The sequence AAA64654.1 differs from that shown. Reason: Frameshift at several positions.

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei74 – 9219Missing in isoform 2 and isoform 4.
VSP_007940Add
BLAST
Alternative sequencei285 – 33450GPSQN…GDYSN → D in isoform 3 and isoform 4.
VSP_007941Add
BLAST

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti22 – 232SA → G in AAA64653. 1 Publication
Sequence conflicti35 – 384AQGP → RRA in AAA64654. 1 Publication
Sequence conflicti35 – 373AQG → RR in AAA64653. 1 Publication
Sequence conflicti50 – 534GSAA → LCG in AAA64654. 1 Publication
Sequence conflicti217 – 2171N → K in AAA64654. 1 Publication
Sequence conflicti227 – 2282FI → ID in AAA64653. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
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_006534735.1. [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:
EMBL
GenBank
DDBJ
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 .
CCDSi CCDS39180.1. [Q60668-2 ]
CCDS39181.1. [Q60668-3 ]
CCDS39182.1. [Q60668-1 ]
CCDS51571.1. [Q60668-4 ]
PIRi I49069.
I49070.
RefSeqi NP_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_006534735.1. [Q60668-1 ]
UniGenei Mm.150231.

3D structure databases

ProteinModelPortali Q60668.
SMRi Q60668. Positions 98-259.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 198279. 5 interactions.
DIPi DIP-31411N.
IntActi Q60668. 7 interactions.
MINTi MINT-1864708.
STRINGi 10090.ENSMUSP00000019128.

PTM databases

PhosphoSitei Q60668.

Proteomic databases

MaxQBi Q60668.
PaxDbi Q60668.
PRIDEi Q60668.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENSMUST00000019128 ; ENSMUSP00000019128 ; ENSMUSG00000000568 . [Q60668-3 ]
ENSMUST00000172361 ; ENSMUSP00000132735 ; ENSMUSG00000000568 . [Q60668-1 ]
GeneIDi 11991.
KEGGi mmu:11991.
UCSCi uc008ygt.1. mouse. [Q60668-1 ]
uc008ygu.1. mouse. [Q60668-3 ]

Organism-specific databases

CTDi 3184.
MGIi MGI:101947. Hnrnpd.

Phylogenomic databases

eggNOGi COG0724.
GeneTreei ENSGT00730000110184.
HOGENOMi HOG000234441.
HOVERGENi HBG002295.
InParanoidi Q60668.
KOi K13044.
OMAi RGGPNQN.
OrthoDBi EOG715Q6V.
PhylomeDBi Q60668.
TreeFami TF314808.

Enzyme and pathway databases

Reactomei REACT_198693. AUF1 (hnRNP D0) destabilizes mRNA.

Miscellaneous databases

ChiTaRSi HNRNPD. mouse.
NextBioi 280159.
PROi Q60668.
SOURCEi Search...

Gene expression databases

ArrayExpressi Q60668.
Bgeei Q60668.
Genevestigatori Q60668.

Family and domain databases

Gene3Di 3.30.70.330. 2 hits.
InterProi IPR012956. CARG-binding_factor_N.
IPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
[Graphical view ]
Pfami PF08143. CBFNT. 1 hit.
PF00076. RRM_1. 2 hits.
[Graphical view ]
SMARTi SM00360. RRM. 2 hits.
[Graphical view ]
PROSITEi PS50102. RRM. 2 hits.
[Graphical view ]
ProtoNeti Search...

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: September 3, 2014
This is version 136 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