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Protein

Heterogeneous nuclear ribonucleoprotein Q

Gene

Syncrip

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at transcript leveli

Functioni

Heterogenous nuclear ribonucleoprotein (hnRNP) implicated in mRNA processing mechanisms. Component of the CRD-mediated complex that promotes MYC mRNA stability. Is associated in vitro with pre-mRNA, splicing intermediates and mature mRNA protein complexes. Binds to apoB mRNA AU-rich sequences. Part of the APOB mRNA editosome complex and may modulate the postranscriptional C to U RNA-editing of the APOB mRNA through either by binding to A1CF (APOBEC1 complementation factor), to APOBEC1 or to RNA itself. 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. Interacts in vitro preferentially with poly(A) and poly(U) RNA sequences. May be involved in cytoplasmic vesicle-based mRNA transport through interaction with synaptotagmins (By similarity).By similarity

GO - Molecular functioni

  • mRNA 3'-UTR binding Source: RGD
  • mRNA 5'-UTR binding Source: RGD
  • nucleotide binding Source: InterPro

GO - Biological processi

  • circadian rhythm Source: RGD
  • mRNA processing Source: UniProtKB-KW
  • negative regulation of mRNA modification Source: RGD
  • positive regulation of translation Source: RGD
  • RNA splicing Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Ribonucleoprotein

Keywords - Biological processi

mRNA processing, mRNA splicing

Keywords - Ligandi

RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Heterogeneous nuclear ribonucleoprotein Q
Short name:
hnRNP Q
Alternative name(s):
Liver regeneration-related protein LRRG077
Synaptotagmin-binding, cytoplasmic RNA-interacting protein
Gene namesi
Name:Syncrip
Synonyms:Hnrpq
ORF Names:Ab2-339
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 8

Organism-specific databases

RGDi1305683. Syncrip.

Subcellular locationi

  • Nucleusnucleoplasm By similarity
  • Cytoplasm By similarity
  • Nucleus By similarity
  • Microsome By similarity

  • Note: Localized in cytoplasmic mRNP granules containing untranslated mRNAs (By similarity). Expressed predominantly in the nucleoplasm. The tyrosine phosphorylated form bound to RNA is found in microsomes (By similarity).By similarity

GO - Cellular componenti

  • CRD-mediated mRNA stability complex Source: UniProtKB
  • cytoplasm Source: RGD
  • endoplasmic reticulum Source: UniProtKB-KW
  • histone pre-mRNA 3'end processing complex Source: UniProtKB
  • intracellular ribonucleoprotein complex Source: UniProtKB
  • membrane Source: RGD
  • neuronal cell body Source: RGD
  • nucleoplasm Source: UniProtKB-SubCell
  • nucleus Source: RGD
  • proximal dendrite Source: RGD
  • spliceosomal complex Source: UniProtKB-KW
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Endoplasmic reticulum, Microsome, Nucleus, Spliceosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methionineiRemovedBy similarity
Chaini2 – 533532Heterogeneous nuclear ribonucleoprotein QPRO_0000081869Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei2 – 21N-acetylalanineBy similarity
Modified residuei131 – 1311N6-acetyllysineBy similarity
Modified residuei273 – 2731N6-acetyllysineBy similarity
Modified residuei283 – 2831PhosphotyrosineBy similarity
Modified residuei354 – 3541Asymmetric dimethylarginine; by PRMT1; alternateBy similarity
Modified residuei354 – 3541Omega-N-methylarginine; by PRMT1; alternateBy similarity
Modified residuei406 – 4061Omega-N-methylarginine; by PRMT1By similarity
Modified residuei420 – 4201Asymmetric dimethylarginine; by PRMT1By similarity
Modified residuei428 – 4281Asymmetric dimethylarginine; by PRMT1; alternateBy similarity
Modified residuei428 – 4281Omega-N-methylarginine; by PRMT1; alternateBy similarity
Modified residuei436 – 4361Asymmetric dimethylarginine; alternateBy similarity
Modified residuei436 – 4361Omega-N-methylarginine; alternateBy similarity
Modified residuei446 – 4461Asymmetric dimethylarginine; by PRMT1; alternateBy similarity
Modified residuei446 – 4461Omega-N-methylarginine; by PRMT1; alternateBy similarity
Modified residuei449 – 4491Asymmetric dimethylarginine; by PRMT1; alternateBy similarity
Modified residuei449 – 4491Omega-N-methylarginine; by PRMT1; alternateBy similarity
Modified residuei497 – 4971PhosphoserineBy similarity

Post-translational modificationi

Phosphorylated on tyrosine. The membrane-bound form found in microsomes is phosphorylated in vitro by insulin receptor tyrosine kinase (INSR). Phosphorylation is inhibited upon binding to RNA, whereas the cytoplasmic form is poorly phosphorylated.

Keywords - PTMi

Acetylation, Methylation, Phosphoprotein

Proteomic databases

PaxDbiQ7TP47.
PRIDEiQ7TP47.

PTM databases

iPTMnetiQ7TP47.
PhosphoSiteiQ7TP47.

Expressioni

Gene expression databases

ExpressionAtlasiQ7TP47. baseline and differential.

Interactioni

Subunit structurei

Identified in a histone pre-mRNA complex, at least composed of ERI1, LSM11, SLBP, SNRPB, SYNCRIP and YBX1. Identified in the spliceosome C complex (By similarity). Component of the coding region determinant (CRD)-mediated complex, composed of DHX9, HNRNPU, IGF2BP1, SYNCRIP and YBX1. Identified in a mRNP complex, at least composed of DHX9, DDX3X, ELAVL1, HNRNPU, IGF2BP1, ILF3, PABPC1, PCBP2, PTBP2, STAU1, STAU2, SYNCRIP and YBX1. Identified in a mRNP granule complex, at least composed of ACTB, ACTN4, DHX9, ERG, HNRNPA1, HNRNPA2B1, HNRNPAB, HNRNPD, HNRNPL, HNRNPR, HNRNPU, HSPA1, HSPA8, IGF2BP1, ILF2, ILF3, NCBP1, NCL, PABPC1, PABPC4, PABPN1, RPLP0, RPS3, RPS3A, RPS4X, RPS8, RPS9, SYNCRIP, TROVE2, YBX1 and untranslated mRNAs. Component of the APOB mRNA editosome. Interacts with APOBEC1 and A1CF. Part of a complex associated with the FOS mCRD domain and consisting of PABPC1, PAIP1, CSDE1/UNR, HNRPD and SYNCRIP. Interacts with HNRPR, SMN, POLR2A hyperphosphorylated C-terminal domain, minute virus of mice (MVM) NS1 protein and through its C-terminal domain with SYT7, SYT8 and SYT9. The non-phosphorylated and phosphorylated forms are colocalized with PAIP1 in polysomes. Interacts with GTPBP1 (By similarity).By similarity

Protein-protein interaction databases

IntActiQ7TP47. 1 interaction.
STRINGi10116.ENSRNOP00000048433.

Structurei

3D structure databases

ProteinModelPortaliQ7TP47.
SMRiQ7TP47. Positions 244-333.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini72 – 15180RRM 1PROSITE-ProRule annotationAdd
BLAST
Domaini153 – 23583RRM 2PROSITE-ProRule annotationAdd
BLAST
Domaini248 – 31871RRM 3PROSITE-ProRule annotationAdd
BLAST
Repeati358 – 36031-1
Repeati361 – 36331-2
Repeati370 – 37452-1
Repeati379 – 38242-2
Repeati388 – 39031-3
Repeati395 – 39842-3
Repeati408 – 41031-4
Repeati436 – 43831-5
Repeati449 – 45131-6
Repeati464 – 46631-7
Repeati467 – 46931-8

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni310 – 471162Interaction with APOBEC1By similarityAdd
BLAST
Regioni358 – 4691128 X 3 AA repeats of R-G-GAdd
BLAST
Regioni370 – 398293 X 4 AA repeats of Y-Y-G-YAdd
BLAST
Regioni428 – 45932Interaction with SMNBy similarityAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi474 – 48815Bipartite nuclear localization signalSequence analysisAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi341 – 3444Poly-Tyr

Domaini

The domain containing eight Arg-Gly-Gly repeats (RGG/RXR-box) may be involved in RNA-binding and protein-protein interactions. It is methylated by PRMT1, and essential for nuclear localization (By similarity).By similarity

Sequence similaritiesi

Contains 3 RRM (RNA recognition motif) domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG0117. Eukaryota.
ENOG410XTJ5. LUCA.
HOGENOMiHOG000186082.
HOVERGENiHBG051917.
InParanoidiQ7TP47.
KOiK13160.

Family and domain databases

Gene3Di3.30.70.330. 2 hits.
InterProiIPR006535. HnRNP_R/Q_splicing_fac.
IPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF00076. RRM_1. 3 hits.
[Graphical view]
SMARTiSM00360. RRM. 3 hits.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 3 hits.
TIGRFAMsiTIGR01648. hnRNP-R-Q. 1 hit.
PROSITEiPS50102. RRM. 3 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

Q7TP47-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MATEHVNGNG TEEPMDTTSA VIHSENFQTL LDAGLPQKVA EKLDEIYVAG
60 70 80 90 100
QRKYGGPPPD SVYSGQQPSV GTEIFVGKIP RDLFEDELVP LFEKAGPIWD
110 120 130 140 150
LRLMMDPLTG LNRGYAFVTF CTKEAAQEAV KLYNNHEIRS GKHIGVCISV
160 170 180 190 200
ANNRLFVGSI PKSKTKEQIL EEFSKVTEGL TDVILYHQPD DKKKNRGFCF
210 220 230 240 250
LEYEDHKTAA QARRRLMSGK VKVWGNVGTV EWADPIEDPD PEVMAKVKVL
260 270 280 290 300
FVRNLANTVT EEILEKSFSQ FGKLERVKKL KDYAFIHFDE RDGAVKAMEE
310 320 330 340 350
MNGKDLEGEN IEIVFAKPPD QKRKERKAQR QAAKNQMYDD YYYYGPPHMP
360 370 380 390 400
PPTRGRGRGG RGGYGYPPDY YGYEDYYDYY GYDYHNYRGG YEDPYYGYED
410 420 430 440 450
FQVGARGRGG RGARGAAPSR GRGAAPPRGR AGYSQRGGPG SARGVRGARG
460 470 480 490 500
GAQQQRGRGV RGARGGRGGN VGGKRKADGY NQPDSKRRQT NNQNWGSQPI
510 520 530
AQQPLQGGDH SGNYGYKSEN EEFYQDTFGQ QWK
Length:533
Mass (Da):59,710
Last modified:October 1, 2003 - v1
Checksum:iEC218ECF4FC00FBF
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY325202 mRNA. Translation: AAP92603.1.
RefSeqiNP_001041381.1. NM_001047916.2.
UniGeneiRn.202606.
Rn.224571.

Genome annotation databases

EnsembliENSRNOT00000041655; ENSRNOP00000048433; ENSRNOG00000000204.
GeneIDi363113.
KEGGirno:363113.
UCSCiRGD:1305683. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY325202 mRNA. Translation: AAP92603.1.
RefSeqiNP_001041381.1. NM_001047916.2.
UniGeneiRn.202606.
Rn.224571.

3D structure databases

ProteinModelPortaliQ7TP47.
SMRiQ7TP47. Positions 244-333.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiQ7TP47. 1 interaction.
STRINGi10116.ENSRNOP00000048433.

PTM databases

iPTMnetiQ7TP47.
PhosphoSiteiQ7TP47.

Proteomic databases

PaxDbiQ7TP47.
PRIDEiQ7TP47.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000041655; ENSRNOP00000048433; ENSRNOG00000000204.
GeneIDi363113.
KEGGirno:363113.
UCSCiRGD:1305683. rat.

Organism-specific databases

CTDi10492.
RGDi1305683. Syncrip.

Phylogenomic databases

eggNOGiKOG0117. Eukaryota.
ENOG410XTJ5. LUCA.
HOGENOMiHOG000186082.
HOVERGENiHBG051917.
InParanoidiQ7TP47.
KOiK13160.

Miscellaneous databases

PROiQ7TP47.

Gene expression databases

ExpressionAtlasiQ7TP47. baseline and differential.

Family and domain databases

Gene3Di3.30.70.330. 2 hits.
InterProiIPR006535. HnRNP_R/Q_splicing_fac.
IPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF00076. RRM_1. 3 hits.
[Graphical view]
SMARTiSM00360. RRM. 3 hits.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 3 hits.
TIGRFAMsiTIGR01648. hnRNP-R-Q. 1 hit.
PROSITEiPS50102. RRM. 3 hits.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Liver regeneration after PH."
    Xu C.S., Li W.Q., Li Y.C., Ma H., Wang L., Wang S.F., Han H.P., Wang G.P., Chai L.Q., Yuan J.Y., Yang K.J., Yan H.M., Chang C.F., Zhao L.F., Shi J.B., Rahman S., Wang Q.N., Zhang J.B.
    Submitted (JUN-2003) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Liver.

Entry informationi

Entry nameiHNRPQ_RAT
AccessioniPrimary (citable) accession number: Q7TP47
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 1, 2004
Last sequence update: October 1, 2003
Last modified: June 8, 2016
This is version 106 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. 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.