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Protein

Polypyrimidine tract-binding protein 3

Gene

PTBP3

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

RNA-binding protein that mediates pre-mRNA alternative splicing regulation. Plays a role in the regulation of cell proliferation, differentiation and migration. Positive regulator of EPO-dependent erythropoiesis. Participates in cell differentiation regulation by repressing tissue-specific exons. Promotes FAS exon 6 skipping. Binds RNA, preferentially to both poly(G) and poly(U).4 Publications

GO - Molecular functioni

  • nucleotide binding Source: InterPro
  • poly(A) RNA binding Source: UniProtKB
  • RNA binding Source: ProtInc

GO - Biological processi

  • anatomical structure morphogenesis Source: ProtInc
  • erythrocyte maturation Source: UniProtKB-KW
  • mRNA processing Source: UniProtKB-KW
  • negative regulation of RNA splicing Source: UniProtKB
  • regulation of cell differentiation Source: Ensembl
  • RNA splicing Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Repressor

Keywords - Biological processi

Differentiation, Erythrocyte maturation, mRNA processing, mRNA splicing

Keywords - Ligandi

RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Polypyrimidine tract-binding protein 3
Alternative name(s):
Regulator of differentiation 1
Short name:
Rod1
Gene namesi
Name:PTBP3
Synonyms:ROD1
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 9

Organism-specific databases

HGNCiHGNC:10253. PTBP3.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA34625.

Polymorphism and mutation databases

BioMutaiPTBP3.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 552552Polypyrimidine tract-binding protein 3PRO_0000081873Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei1 – 11N-acetylmethionineBy similarity
Modified residuei423 – 4231N6-acetyllysineCombined sources
Modified residuei454 – 4541PhosphoserineCombined sources
Isoform 1 (identifier: O95758-1)
Modified residuei1 – 11N-acetylmethionineCombined sources

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

EPDiO95758.
MaxQBiO95758.
PaxDbiO95758.
PeptideAtlasiO95758.
PRIDEiO95758.

PTM databases

iPTMnetiO95758.
PhosphoSiteiO95758.
SwissPalmiO95758.

Expressioni

Tissue specificityi

Expressed in several hematopoietic cell lines examined.1 Publication

Gene expression databases

BgeeiENSG00000119314.
CleanExiHS_ROD1.
ExpressionAtlasiO95758. baseline and differential.
GenevisibleiO95758. HS.

Interactioni

Subunit structurei

Interacts with THBS4 (via the acidic amphipathic C-terminus).1 Publication

Protein-protein interaction databases

BioGridi115312. 18 interactions.
IntActiO95758. 282 interactions.
STRINGi9606.ENSP00000334499.

Structurei

3D structure databases

ProteinModelPortaliO95758.
SMRiO95758. Positions 57-146, 178-282, 356-552.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini59 – 14385RRM 1PROSITE-ProRule annotationAdd
BLAST
Domaini182 – 25877RRM 2PROSITE-ProRule annotationAdd
BLAST
Domaini358 – 43275RRM 3PROSITE-ProRule annotationAdd
BLAST
Domaini475 – 55076RRM 4PROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

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

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG1190. Eukaryota.
ENOG410XPMZ. LUCA.
GeneTreeiENSGT00550000074508.
HOGENOMiHOG000231699.
HOVERGENiHBG069548.
InParanoidiO95758.
KOiK17844.
OMAiQSPHCAL.
OrthoDBiEOG091G0Z5R.
PhylomeDBiO95758.
TreeFamiTF319824.

Family and domain databases

Gene3Di3.30.70.330. 4 hits.
InterProiIPR006536. HnRNP-L/PTB.
IPR012677. Nucleotide-bd_a/b_plait.
IPR033110. PTBP3.
IPR000504. RRM_dom.
[Graphical view]
PANTHERiPTHR24012:SF376. PTHR24012:SF376. 3 hits.
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 (7)i

Sequence statusi: Complete.

This entry describes 7 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 3 (identifier: O95758-3) [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
MDGVVTDLIT VGLKRGSDEL LSSGIINGPF TMNSSTPSTA NGNDSKKFKR
60 70 80 90 100
DRPPCSPSRV LHLRKIPCDV TEAEIISLGL PFGKVTNLLM LKGKSQAFLE
110 120 130 140 150
MASEEAAVTM VNYYTPITPH LRSQPVYIQY SNHRELKTDN LPNQARAQAA
160 170 180 190 200
LQAVSAVQSG SLALSGGPSN EGTVLPGQSP VLRIIIENLF YPVTLEVLHQ
210 220 230 240 250
IFSKFGTVLK IITFTKNNQF QALLQYADPV NAHYAKMALD GQNIYNACCT
260 270 280 290 300
LRIDFSKLTS LNVKYNNDKS RDFTRLDLPT GDGQPSLEPP MAAAFGAPGI
310 320 330 340 350
ISSPYAGAAG FAPAIGFPQA TGLSVPAVPG ALGPLTITSS AVTGRMAIPG
360 370 380 390 400
ASGIPGNSVL LVTNLNPDLI TPHGLFILFG VYGDVHRVKI MFNKKENALV
410 420 430 440 450
QMADANQAQL AMNHLSGQRL YGKVLRATLS KHQAVQLPRE GQEDQGLTKD
460 470 480 490 500
FSNSPLHRFK KPGSKNFQNI FPPSATLHLS NIPPSVTVDD LKNLFIEAGC
510 520 530 540 550
SVKAFKFFQK DRKMALIQLG SVEEAIQALI ELHNHDLGEN HHLRVSFSKS

TI
Length:552
Mass (Da):59,690
Last modified:December 16, 2008 - v2
Checksum:i6254928B781A436A
GO
Isoform 1 (identifier: O95758-1) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-31: Missing.

Show »
Length:521
Mass (Da):56,502
Checksum:iB73CC6F98200B704
GO
Isoform 2 (identifier: O95758-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-31: Missing.
     39-39: T → TGVY
     510-552: KDRKMALIQL...LRVSFSKSTI → GLANSWAQVI...VPTRYFWTKN

Show »
Length:547
Mass (Da):59,112
Checksum:iCA0668ECF9F04545
GO
Isoform 4 (identifier: O95758-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-14: MDGVVTDLITVGLK → MDASPSPFSLPKKLNELSAR

Show »
Length:558
Mass (Da):60,417
Checksum:iD20E5BA201A6CA84
GO
Isoform 5 (identifier: O95758-5) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     39-39: T → TGVY

Show »
Length:555
Mass (Da):60,009
Checksum:iBD53F9AB611E8C2A
GO
Isoform 6 (identifier: O95758-6) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-31: Missing.
     39-39: T → TGVY

Show »
Length:524
Mass (Da):56,821
Checksum:iA82C6B5E094AFED0
GO
Isoform 7 (identifier: O95758-7) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-96: MDGVVTDLIT...NLLMLKGKSQ → M

Note: No experimental confirmation available.
Show »
Length:457
Mass (Da):49,540
Checksum:iE3C98C4381901EDE
GO

Sequence cautioni

The sequence AAH39896 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated
The sequence BAA75466 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated
The sequence BI463123 differs from that shown. Reason: Frameshift at position 92. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti259 – 2591T → I in BAG50959 (PubMed:14702039).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 9696MDGVV…KGKSQ → M in isoform 7. 1 PublicationVSP_045608Add
BLAST
Alternative sequencei1 – 3131Missing in isoform 1, isoform 2 and isoform 6. 2 PublicationsVSP_035985Add
BLAST
Alternative sequencei1 – 1414MDGVV…TVGLK → MDASPSPFSLPKKLNELSAR in isoform 4. 1 PublicationVSP_035986Add
BLAST
Alternative sequencei39 – 391T → TGVY in isoform 2, isoform 5 and isoform 6. 3 PublicationsVSP_010867
Alternative sequencei510 – 55243KDRKM…SKSTI → GLANSWAQVILLLPPPHSAG ITGMSHHAWLSVLFSVSVPS VSSAYMFSILSCSFSSVPTR YFWTKN in isoform 2. 1 PublicationVSP_010868Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK001685 mRNA. Translation: BAG50959.1.
AK302558 mRNA. Translation: BAG63824.1.
CR749471 mRNA. Translation: CAH18301.1.
AL158824, AL359073 Genomic DNA. Translation: CAI12349.1.
AL158824, AL359073 Genomic DNA. Translation: CAI12350.1.
AL158824 Genomic DNA. Translation: CAI12353.1.
AL158824 Genomic DNA. Translation: CAI12354.1.
AL359073, AL158824 Genomic DNA. Translation: CAI14112.1.
AL359073, AL158824 Genomic DNA. Translation: CAI14113.1.
CH471105 Genomic DNA. Translation: EAW59100.1.
BC039896 mRNA. Translation: AAH39896.1. Different initiation.
BC044585 mRNA. Translation: AAH44585.1.
BI463123 mRNA. No translation available.
AB023967 mRNA. Translation: BAA75466.1. Different initiation.
CCDSiCCDS55332.1. [O95758-6]
CCDS55333.1. [O95758-5]
CCDS59140.1. [O95758-7]
CCDS59141.1. [O95758-4]
CCDS6784.1. [O95758-3]
RefSeqiNP_001157260.1. NM_001163788.2. [O95758-6]
NP_001157262.1. NM_001163790.2. [O95758-5]
NP_001231825.1. NM_001244896.1. [O95758-7]
NP_001231826.1. NM_001244897.1. [O95758-2]
NP_001231827.1. NM_001244898.1. [O95758-4]
NP_005147.3. NM_005156.6. [O95758-3]
XP_006717409.1. XM_006717346.1. [O95758-1]
UniGeneiHs.269988.

Genome annotation databases

EnsembliENST00000334318; ENSP00000334499; ENSG00000119314. [O95758-5]
ENST00000343327; ENSP00000340705; ENSG00000119314. [O95758-7]
ENST00000374255; ENSP00000363373; ENSG00000119314. [O95758-3]
ENST00000374257; ENSP00000363375; ENSG00000119314. [O95758-6]
ENST00000458258; ENSP00000414921; ENSG00000119314. [O95758-4]
GeneIDi9991.
KEGGihsa:9991.
UCSCiuc004bfv.4. human. [O95758-3]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK001685 mRNA. Translation: BAG50959.1.
AK302558 mRNA. Translation: BAG63824.1.
CR749471 mRNA. Translation: CAH18301.1.
AL158824, AL359073 Genomic DNA. Translation: CAI12349.1.
AL158824, AL359073 Genomic DNA. Translation: CAI12350.1.
AL158824 Genomic DNA. Translation: CAI12353.1.
AL158824 Genomic DNA. Translation: CAI12354.1.
AL359073, AL158824 Genomic DNA. Translation: CAI14112.1.
AL359073, AL158824 Genomic DNA. Translation: CAI14113.1.
CH471105 Genomic DNA. Translation: EAW59100.1.
BC039896 mRNA. Translation: AAH39896.1. Different initiation.
BC044585 mRNA. Translation: AAH44585.1.
BI463123 mRNA. No translation available.
AB023967 mRNA. Translation: BAA75466.1. Different initiation.
CCDSiCCDS55332.1. [O95758-6]
CCDS55333.1. [O95758-5]
CCDS59140.1. [O95758-7]
CCDS59141.1. [O95758-4]
CCDS6784.1. [O95758-3]
RefSeqiNP_001157260.1. NM_001163788.2. [O95758-6]
NP_001157262.1. NM_001163790.2. [O95758-5]
NP_001231825.1. NM_001244896.1. [O95758-7]
NP_001231826.1. NM_001244897.1. [O95758-2]
NP_001231827.1. NM_001244898.1. [O95758-4]
NP_005147.3. NM_005156.6. [O95758-3]
XP_006717409.1. XM_006717346.1. [O95758-1]
UniGeneiHs.269988.

3D structure databases

ProteinModelPortaliO95758.
SMRiO95758. Positions 57-146, 178-282, 356-552.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi115312. 18 interactions.
IntActiO95758. 282 interactions.
STRINGi9606.ENSP00000334499.

PTM databases

iPTMnetiO95758.
PhosphoSiteiO95758.
SwissPalmiO95758.

Polymorphism and mutation databases

BioMutaiPTBP3.

Proteomic databases

EPDiO95758.
MaxQBiO95758.
PaxDbiO95758.
PeptideAtlasiO95758.
PRIDEiO95758.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000334318; ENSP00000334499; ENSG00000119314. [O95758-5]
ENST00000343327; ENSP00000340705; ENSG00000119314. [O95758-7]
ENST00000374255; ENSP00000363373; ENSG00000119314. [O95758-3]
ENST00000374257; ENSP00000363375; ENSG00000119314. [O95758-6]
ENST00000458258; ENSP00000414921; ENSG00000119314. [O95758-4]
GeneIDi9991.
KEGGihsa:9991.
UCSCiuc004bfv.4. human. [O95758-3]

Organism-specific databases

CTDi9991.
GeneCardsiPTBP3.
H-InvDBHIX0008290.
HGNCiHGNC:10253. PTBP3.
MIMi607527. gene.
neXtProtiNX_O95758.
PharmGKBiPA34625.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG1190. Eukaryota.
ENOG410XPMZ. LUCA.
GeneTreeiENSGT00550000074508.
HOGENOMiHOG000231699.
HOVERGENiHBG069548.
InParanoidiO95758.
KOiK17844.
OMAiQSPHCAL.
OrthoDBiEOG091G0Z5R.
PhylomeDBiO95758.
TreeFamiTF319824.

Miscellaneous databases

GenomeRNAii9991.
PROiO95758.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000119314.
CleanExiHS_ROD1.
ExpressionAtlasiO95758. baseline and differential.
GenevisibleiO95758. HS.

Family and domain databases

Gene3Di3.30.70.330. 4 hits.
InterProiIPR006536. HnRNP-L/PTB.
IPR012677. Nucleotide-bd_a/b_plait.
IPR033110. PTBP3.
IPR000504. RRM_dom.
[Graphical view]
PANTHERiPTHR24012:SF376. PTHR24012:SF376. 3 hits.
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 nameiPTBP3_HUMAN
AccessioniPrimary (citable) accession number: O95758
Secondary accession number(s): B1ALY2
, B1ALY3, B1ALY5, B1ALY6, B3KME7, Q68DB9, Q86YB3, Q86YH9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 19, 2004
Last sequence update: December 16, 2008
Last modified: September 7, 2016
This is version 139 of the entry and version 2 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

Complete proteome, Reference proteome

Documents

  1. Human chromosome 9
    Human chromosome 9: 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. 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.