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Protein

Polypyrimidine tract-binding protein 2

Gene

PTBP2

Organism
Homo sapiens (Human)
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. Isoform 5 has a reduced affinity for RNA.2 Publications

GO - Molecular functioni

  • mRNA binding Source: Ensembl
  • nucleotide binding Source: InterPro
  • poly(A) RNA binding Source: UniProtKB
  • pre-mRNA binding Source: Ensembl

GO - Biological processi

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
Neurally-enriched homolog of PTB
PTB-like protein
Gene namesi
Name:PTBP2
Synonyms:NPTB, PTB, PTBLP
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 1

Organism-specific databases

HGNCiHGNC:17662. PTBP2.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

DisGeNETi58155.
OpenTargetsiENSG00000117569.
PharmGKBiPA33935.

Polymorphism and mutation databases

BioMutaiPTBP2.
DMDMi74761983.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002329281 – 531Polypyrimidine tract-binding protein 2Add BLAST531

Amino acid modifications

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

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

EPDiQ9UKA9.
PaxDbiQ9UKA9.
PeptideAtlasiQ9UKA9.
PRIDEiQ9UKA9.

2D gel databases

REPRODUCTION-2DPAGEIPI00647067.

PTM databases

iPTMnetiQ9UKA9.
PhosphoSitePlusiQ9UKA9.
SwissPalmiQ9UKA9.

Expressioni

Tissue specificityi

Mainly expressed in brain although also detected in other tissues like heart and skeletal muscle. Isoform 1 and isoform 2 are specifically expressed in neuronal tissues. Isoform 3 and isoform 4 are expressed in non-neuronal tissues. Isoform 5 and isoform 6 are truncated forms expressed in non-neuronal tissues.2 Publications

Gene expression databases

BgeeiENSG00000117569.
CleanExiHS_PTBP2.
GenevisibleiQ9UKA9. HS.

Organism-specific databases

HPAiHPA047420.

Interactioni

Subunit structurei

Monomer. Interacts with NOVA1; the interaction is direct. Interacts with NOVA2; the interaction is direct (By similarity). 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.By similarity2 Publications

Protein-protein interaction databases

BioGridi121796. 22 interactors.
IntActiQ9UKA9. 22 interactors.
MINTiMINT-1483252.
STRINGi9606.ENSP00000412788.

Structurei

Secondary structure

1531
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi59 – 65Combined sources7
Helixi72 – 77Combined sources6
Turni78 – 82Combined sources5
Beta strandi85 – 91Combined sources7
Turni92 – 95Combined sources4
Beta strandi96 – 103Combined sources8
Helixi104 – 116Combined sources13
Beta strandi127 – 130Combined sources4
Beta strandi339 – 344Combined sources6
Turni347 – 349Combined sources3
Helixi352 – 359Combined sources8
Turni360 – 362Combined sources3
Beta strandi365 – 371Combined sources7
Beta strandi374 – 384Combined sources11
Helixi385 – 395Combined sources11
Beta strandi400 – 403Combined sources4
Beta strandi406 – 409Combined sources4
Beta strandi419 – 422Combined sources4
Turni423 – 425Combined sources3
Beta strandi428 – 430Combined sources3
Helixi431 – 433Combined sources3
Helixi444 – 446Combined sources3
Beta strandi447 – 450Combined sources4
Beta strandi455 – 460Combined sources6
Helixi468 – 476Combined sources9
Turni477 – 479Combined sources3
Beta strandi482 – 487Combined sources6
Beta strandi494 – 500Combined sources7
Helixi501 – 511Combined sources11
Beta strandi515 – 517Combined sources3
Beta strandi523 – 526Combined sources4

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2CQ1NMR-A51-138[»]
2MJUNMR-A325-531[»]
4CQ1X-ray1.69A/B/C/D/E/F/G/H336-531[»]
ProteinModelPortaliQ9UKA9.
SMRiQ9UKA9.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9UKA9.

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.
HOVERGENiHBG069548.
InParanoidiQ9UKA9.
KOiK14948.
OMAiNLGESHH.
OrthoDBiEOG091G0Z5R.
PhylomeDBiQ9UKA9.
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 (6)i

Sequence statusi: Complete.

This entry describes 6 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9UKA9-1) [UniParc]FASTAAdd to basket
Also known as: nPTB1

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 NMSSMVVTAN GNDSKKFKGE
60 70 80 90 100
DKMDGAPSRV LHIRKLPGEV TETEVIALGL PFGKVTNILM LKGKNQAFLE
110 120 130 140 150
LATEEAAITM VNYYSAVTPH LRNQPIYIQY SNHKELKTDN TLNQRAQAVL
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):57,491
Last modified:May 1, 2000 - v1
Checksum:i57ADA23F422AE02A
GO
Isoform 2 (identifier: Q9UKA9-2) [UniParc]FASTAAdd to basket
Also known as: nPTB2, PTBPLP-L

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

Show »
Length:532
Mass (Da):57,647
Checksum:iA77702A0B7A84298
GO
Isoform 3 (identifier: Q9UKA9-3) [UniParc]FASTAAdd to basket
Also known as: nPTB3, PTBPLP-L'

The sequence of this isoform differs from the canonical sequence as follows:
     302-302: A → GLPVAA
     489-489: Q → QR

Show »
Length:537
Mass (Da):58,084
Checksum:i35F5BFD2614647B3
GO
Isoform 4 (identifier: Q9UKA9-4) [UniParc]FASTAAdd to basket
Also known as: nPTB4

The sequence of this isoform differs from the canonical sequence as follows:
     302-302: A → GLPVAA

Show »
Length:536
Mass (Da):57,928
Checksum:i9510D0E9AC2FCBD6
GO
Isoform 5 (identifier: Q9UKA9-5) [UniParc]FASTAAdd to basket
Also known as: nPTB5, nPTB7, PTBPLP-S

The sequence of this isoform differs from the canonical sequence as follows:
     349-356: MVTPQSLF → VFMEMCSV
     357-531: Missing.

Show »
Length:356
Mass (Da):37,898
Checksum:iC1D3D2E104207E27
GO
Isoform 6 (identifier: Q9UKA9-6) [UniParc]FASTAAdd to basket
Also known as: nPTB6, nPTB8, PTBPLP-S'

The sequence of this isoform differs from the canonical sequence as follows:
     302-302: A → GLPVAA
     349-356: MVTPQSLF → VFMEMCSV
     357-531: Missing.

Show »
Length:361
Mass (Da):38,336
Checksum:iC47DB1BA2B404A03
GO

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_018015302A → GLPVAA in isoform 3, isoform 4 and isoform 6. 1 Publication1
Alternative sequenceiVSP_018016349 – 356MVTPQSLF → VFMEMCSV in isoform 5 and isoform 6. 2 Publications8
Alternative sequenceiVSP_018017357 – 531Missing in isoform 5 and isoform 6. 2 PublicationsAdd BLAST175
Alternative sequenceiVSP_018018489Q → QR in isoform 2 and isoform 3. 3 Publications1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF176085 mRNA. Translation: AAF14284.1.
AB051232 mRNA. Translation: BAB71742.1.
AB051233 mRNA. Translation: BAB71743.1.
AF530580 mRNA. Translation: AAM94624.1.
AF530581 mRNA. Translation: AAM94625.1.
AF530582 mRNA. Translation: AAM94626.1.
AF530583 mRNA. Translation: AAM94627.1.
BK000526 mRNA. Translation: DAA00060.1.
AL357150 Genomic DNA. Translation: CAH70266.1.
AL357150 Genomic DNA. Translation: CAH70267.1.
AL357150 Genomic DNA. Translation: CAH70268.1.
AL357150 Genomic DNA. Translation: CAH70269.1.
BC016582 mRNA. Translation: AAH16582.1.
CCDSiCCDS72828.1. [Q9UKA9-3]
CCDS72829.1. [Q9UKA9-4]
CCDS72830.1. [Q9UKA9-2]
CCDS754.1. [Q9UKA9-1]
RefSeqiNP_001287914.1. NM_001300985.1. [Q9UKA9-3]
NP_001287915.1. NM_001300986.1.
NP_001287916.1. NM_001300987.1.
NP_001287917.1. NM_001300988.1. [Q9UKA9-4]
NP_001287918.1. NM_001300989.1. [Q9UKA9-2]
NP_001287919.1. NM_001300990.1.
NP_067013.1. NM_021190.3. [Q9UKA9-1]
UniGeneiHs.596061.
Hs.743449.

Genome annotation databases

EnsembliENST00000370197; ENSP00000359216; ENSG00000117569. [Q9UKA9-3]
ENST00000370198; ENSP00000359217; ENSG00000117569. [Q9UKA9-4]
ENST00000426398; ENSP00000412788; ENSG00000117569. [Q9UKA9-1]
ENST00000609116; ENSP00000477024; ENSG00000117569. [Q9UKA9-2]
GeneIDi58155.
KEGGihsa:58155.
UCSCiuc001drn.3. human. [Q9UKA9-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF176085 mRNA. Translation: AAF14284.1.
AB051232 mRNA. Translation: BAB71742.1.
AB051233 mRNA. Translation: BAB71743.1.
AF530580 mRNA. Translation: AAM94624.1.
AF530581 mRNA. Translation: AAM94625.1.
AF530582 mRNA. Translation: AAM94626.1.
AF530583 mRNA. Translation: AAM94627.1.
BK000526 mRNA. Translation: DAA00060.1.
AL357150 Genomic DNA. Translation: CAH70266.1.
AL357150 Genomic DNA. Translation: CAH70267.1.
AL357150 Genomic DNA. Translation: CAH70268.1.
AL357150 Genomic DNA. Translation: CAH70269.1.
BC016582 mRNA. Translation: AAH16582.1.
CCDSiCCDS72828.1. [Q9UKA9-3]
CCDS72829.1. [Q9UKA9-4]
CCDS72830.1. [Q9UKA9-2]
CCDS754.1. [Q9UKA9-1]
RefSeqiNP_001287914.1. NM_001300985.1. [Q9UKA9-3]
NP_001287915.1. NM_001300986.1.
NP_001287916.1. NM_001300987.1.
NP_001287917.1. NM_001300988.1. [Q9UKA9-4]
NP_001287918.1. NM_001300989.1. [Q9UKA9-2]
NP_001287919.1. NM_001300990.1.
NP_067013.1. NM_021190.3. [Q9UKA9-1]
UniGeneiHs.596061.
Hs.743449.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2CQ1NMR-A51-138[»]
2MJUNMR-A325-531[»]
4CQ1X-ray1.69A/B/C/D/E/F/G/H336-531[»]
ProteinModelPortaliQ9UKA9.
SMRiQ9UKA9.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi121796. 22 interactors.
IntActiQ9UKA9. 22 interactors.
MINTiMINT-1483252.
STRINGi9606.ENSP00000412788.

PTM databases

iPTMnetiQ9UKA9.
PhosphoSitePlusiQ9UKA9.
SwissPalmiQ9UKA9.

Polymorphism and mutation databases

BioMutaiPTBP2.
DMDMi74761983.

2D gel databases

REPRODUCTION-2DPAGEIPI00647067.

Proteomic databases

EPDiQ9UKA9.
PaxDbiQ9UKA9.
PeptideAtlasiQ9UKA9.
PRIDEiQ9UKA9.

Protocols and materials databases

DNASUi58155.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000370197; ENSP00000359216; ENSG00000117569. [Q9UKA9-3]
ENST00000370198; ENSP00000359217; ENSG00000117569. [Q9UKA9-4]
ENST00000426398; ENSP00000412788; ENSG00000117569. [Q9UKA9-1]
ENST00000609116; ENSP00000477024; ENSG00000117569. [Q9UKA9-2]
GeneIDi58155.
KEGGihsa:58155.
UCSCiuc001drn.3. human. [Q9UKA9-1]

Organism-specific databases

CTDi58155.
DisGeNETi58155.
GeneCardsiPTBP2.
HGNCiHGNC:17662. PTBP2.
HPAiHPA047420.
MIMi608449. gene.
neXtProtiNX_Q9UKA9.
OpenTargetsiENSG00000117569.
PharmGKBiPA33935.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG1190. Eukaryota.
ENOG410XPMZ. LUCA.
GeneTreeiENSGT00550000074508.
HOVERGENiHBG069548.
InParanoidiQ9UKA9.
KOiK14948.
OMAiNLGESHH.
OrthoDBiEOG091G0Z5R.
PhylomeDBiQ9UKA9.
TreeFamiTF319824.

Miscellaneous databases

ChiTaRSiPTBP2. human.
EvolutionaryTraceiQ9UKA9.
GeneWikiiPTBP2.
GenomeRNAii58155.
PROiQ9UKA9.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000117569.
CleanExiHS_PTBP2.
GenevisibleiQ9UKA9. HS.

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_HUMAN
AccessioniPrimary (citable) accession number: Q9UKA9
Secondary accession number(s): Q8N0Z1
, Q8N160, Q8NFB0, Q8NFB1, Q969N9, Q96Q76
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 18, 2006
Last sequence update: May 1, 2000
Last modified: November 30, 2016
This is version 144 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Human chromosome 1
    Human chromosome 1: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. 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.