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Protein

Polypyrimidine tract-binding protein 2

Gene

Ptbp2

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

Functioni

RNA-binding protein which binds to intronic polypyrimidine tracts and mediates negative regulation of exons splicing. May antagonize in a tissue-specific manner the ability of NOVA1 to activate exon selection. In addition to its function in pre-mRNA splicing, plays also a role in the regulation of translation.

GO - Molecular functioni

  • mRNA binding Source: Ensembl
  • nucleotide binding Source: InterPro
  • pre-mRNA binding Source: RGD

GO - Biological processi

  • cerebellum development Source: RGD
  • mRNA splice site selection Source: Ensembl
  • negative regulation of RNA splicing Source: RGD
  • regulation of neural precursor cell proliferation Source: Ensembl
  • spinal cord development Source: RGD
Complete GO annotation...

Keywords - Biological processi

mRNA processing, mRNA splicing

Keywords - Ligandi

RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Polypyrimidine tract-binding protein 2
Alternative name(s):
Neural polypyrimidine tract-binding protein
PTB-like protein
Gene namesi
Name:Ptbp2
Synonyms:Nptb, Ptblp
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 2

Organism-specific databases

RGDi1359267. Ptbp2.

Subcellular locationi

GO - Cellular componenti

  • growth cone Source: RGD
  • neuronal cell body Source: RGD
  • nucleus Source: RGD
  • spliceosomal complex Source: Ensembl
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002329301 – 531Polypyrimidine tract-binding protein 2Add BLAST531

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei1N-acetylmethionineBy similarity1
Modified residuei26PhosphoserineBy similarity1
Modified residuei27PhosphoserineBy similarity1
Modified residuei308PhosphoserineCombined sources1

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

PaxDbiQ66H20.
PRIDEiQ66H20.

PTM databases

iPTMnetiQ66H20.
PhosphoSitePlusiQ66H20.

Expressioni

Gene expression databases

BgeeiENSRNOG00000010827.

Interactioni

Subunit structurei

Monomer. Identified in a mRNP complex, at least composed of DHX9, DDX3X, ELAVL1, HNRNPU, IGF2BP1, ILF3, PABPC1, PCBP2, PTBP2, STAU1, STAU2, SYNCRIP and YBX1. Part of a ternary complex containing KHSRP and HNRPH1. Interacts with NOVA1; the interaction is direct. Interacts with NOVA2; the interaction is direct (By similarity).By similarity

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000015036.

Structurei

3D structure databases

ProteinModelPortaliQ66H20.
SMRiQ66H20.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini59 – 133RRM 1PROSITE-ProRule annotationAdd BLAST75
Domaini181 – 257RRM 2PROSITE-ProRule annotationAdd BLAST77
Domaini338 – 412RRM 3PROSITE-ProRule annotationAdd BLAST75
Domaini455 – 529RRM 4PROSITE-ProRule annotationAdd BLAST75

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi315 – 324Poly-Ala10

Sequence similaritiesi

Contains 4 RRM (RNA recognition motif) domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG1190. Eukaryota.
ENOG410XPMZ. LUCA.
GeneTreeiENSGT00550000074508.
HOGENOMiHOG000231699.
HOVERGENiHBG069548.
InParanoidiQ66H20.
KOiK14948.
OMAiNLGESHH.
OrthoDBiEOG091G0Z5R.
PhylomeDBiQ66H20.
TreeFamiTF319824.

Family and domain databases

Gene3Di3.30.70.330. 4 hits.
InterProiIPR006536. HnRNP-L/PTB.
IPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF00076. RRM_1. 2 hits.
[Graphical view]
SMARTiSM00360. RRM. 4 hits.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 4 hits.
TIGRFAMsiTIGR01649. hnRNP-L_PTB. 1 hit.
PROSITEiPS50102. RRM. 4 hits.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q66H20-1) [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
MDGIVTEVAV GVKRGSDELL SGSVLSSPNS NMSGMVVTAN GNDSKKFKGE
60 70 80 90 100
DKMDGAPSRV LHIRKLPGEV TETEVIALGL PFGKVTNILM LKGKNQAFLE
110 120 130 140 150
LATEEAAITM VNYYSAVTPH LRNQPIYIQY SNHKELKTDN TLNQRAQVVL
160 170 180 190 200
QAVTAVQTAN TPLSGTTVSE SAVTPAQSPV LRIIIDNMYY PVTLDVLHQI
210 220 230 240 250
FSKFGAVLKI ITFTKNNQFQ ALLQYGDPVN AQQAKLALDG QNIYNACCTL
260 270 280 290 300
RIDFSKLVNL NVKYNNDKSR DYTRPDLPSG DGQPALDPAI AAAFAKETSL
310 320 330 340 350
LAVPGALSPL AIPNAAAAAA AAAAGRVGMP GVSAGGNTVL LVSNLNEEMV
360 370 380 390 400
TPQSLFTLFG VYGDVQRVKI LYNKKDSALI QMADGNQSQL AMNHLNGQKM
410 420 430 440 450
YGKIIRVTLS KHQTVQLPRE GLDDQGLTKD FGNSPLHRFK KPGSKNFQNI
460 470 480 490 500
FPPSATLHLS NIPPSVAEED LRTLFANTGG TVKAFKFFQD HKMALLQMAT
510 520 530
VEEAIQALID LHNYNLGENH HLRVSFSKST I
Length:531
Mass (Da):57,489
Last modified:October 11, 2004 - v1
Checksum:i3A93CA4E3E1D6AA3
GO
Isoform 2 (identifier: Q66H20-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     489-489: Q → QR

Show »
Length:532
Mass (Da):57,645
Checksum:i732A3CC8C6D47512
GO

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_018020489Q → QR in isoform 2. 1 Publication1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ010585 mRNA. Translation: CAB54073.1.
BC082076 mRNA. Translation: AAH82076.1.
AY333750 Genomic DNA. Translation: AAQ01148.1.
RefSeqiNP_001005555.1. NM_001005555.1. [Q66H20-1]
XP_006233300.1. XM_006233238.3. [Q66H20-2]
UniGeneiRn.64916.

Genome annotation databases

EnsembliENSRNOT00000015036; ENSRNOP00000015036; ENSRNOG00000010827. [Q66H20-1]
GeneIDi310820.
KEGGirno:310820.
UCSCiRGD:1359267. rat. [Q66H20-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ010585 mRNA. Translation: CAB54073.1.
BC082076 mRNA. Translation: AAH82076.1.
AY333750 Genomic DNA. Translation: AAQ01148.1.
RefSeqiNP_001005555.1. NM_001005555.1. [Q66H20-1]
XP_006233300.1. XM_006233238.3. [Q66H20-2]
UniGeneiRn.64916.

3D structure databases

ProteinModelPortaliQ66H20.
SMRiQ66H20.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000015036.

PTM databases

iPTMnetiQ66H20.
PhosphoSitePlusiQ66H20.

Proteomic databases

PaxDbiQ66H20.
PRIDEiQ66H20.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000015036; ENSRNOP00000015036; ENSRNOG00000010827. [Q66H20-1]
GeneIDi310820.
KEGGirno:310820.
UCSCiRGD:1359267. rat. [Q66H20-1]

Organism-specific databases

CTDi58155.
RGDi1359267. Ptbp2.

Phylogenomic databases

eggNOGiKOG1190. Eukaryota.
ENOG410XPMZ. LUCA.
GeneTreeiENSGT00550000074508.
HOGENOMiHOG000231699.
HOVERGENiHBG069548.
InParanoidiQ66H20.
KOiK14948.
OMAiNLGESHH.
OrthoDBiEOG091G0Z5R.
PhylomeDBiQ66H20.
TreeFamiTF319824.

Miscellaneous databases

PROiQ66H20.

Gene expression databases

BgeeiENSRNOG00000010827.

Family and domain databases

Gene3Di3.30.70.330. 4 hits.
InterProiIPR006536. HnRNP-L/PTB.
IPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF00076. RRM_1. 2 hits.
[Graphical view]
SMARTiSM00360. RRM. 4 hits.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 4 hits.
TIGRFAMsiTIGR01649. hnRNP-L_PTB. 1 hit.
PROSITEiPS50102. RRM. 4 hits.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiPTBP2_RAT
AccessioniPrimary (citable) accession number: Q66H20
Secondary accession number(s): Q78ZE9, Q7TNW8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 18, 2006
Last sequence update: October 11, 2004
Last modified: November 2, 2016
This is version 99 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.