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PABPC1 (poly(A) binding protein cytoplasmic 1)

Identity

Alias_namesPAB1
PABPC2
poly(A)-binding protein
Alias_symbol (synonym)PABP1
PABPL1
Other aliasPABP
HGNC (Hugo) PABPC1
LocusID (NCBI) 26986
Atlas_Id 43613
Location 8q22.3  [Link to chromosome band 8q22]
Location_base_pair Starts at 100702916 and ends at 100722087 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
HLA-DQB1 (6p21.32) / PABPC1 (8q22.3)ILK (11p15.4) / PABPC1 (8q22.3)MFGE8 (15q26.1) / PABPC1 (8q22.3)
PABPC1 (8q22.3) / DPP4 (2q24.2)PABPC1 (8q22.3) / MGEA5 (10q24.32)PABPC1 (8q22.3) / MTMR14 (3p25.3)
PABPC1 (8q22.3) / NR4A1 (12q13.13)PABPC1 (8q22.3) / PABPC1 (8q22.3)PABPC1 (8q22.3) / VCP (9p13.3)
RFX3 (9p24.2) / PABPC1 (8q22.3)RPS24 (10q22.3) / PABPC1 (8q22.3)SNX31 (8q22.2) / PABPC1 (8q22.3)
SNX31 8q22.2 / PABPC1 8q22.3

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)PABPC1   8554
Cards
Entrez_Gene (NCBI)PABPC1  26986  poly(A) binding protein cytoplasmic 1
AliasesPAB1; PABP; PABP1; PABPC2; 
PABPL1
GeneCards (Weizmann)PABPC1
Ensembl hg19 (Hinxton)ENSG00000070756 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000070756 [Gene_View]  chr8:100702916-100722087 [Contig_View]  PABPC1 [Vega]
ICGC DataPortalENSG00000070756
TCGA cBioPortalPABPC1
AceView (NCBI)PABPC1
Genatlas (Paris)PABPC1
WikiGenes26986
SOURCE (Princeton)PABPC1
Genetics Home Reference (NIH)PABPC1
Genomic and cartography
GoldenPath hg38 (UCSC)PABPC1  -     chr8:100702916-100722087 -  8q22.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PABPC1  -     8q22.3   [Description]    (hg19-Feb_2009)
EnsemblPABPC1 - 8q22.3 [CytoView hg19]  PABPC1 - 8q22.3 [CytoView hg38]
Mapping of homologs : NCBIPABPC1 [Mapview hg19]  PABPC1 [Mapview hg38]
OMIM604679   
Gene and transcription
Genbank (Entrez)AK095194 AK130523 AK298990 AK303120 AL135187
RefSeq transcript (Entrez)NM_002568
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)PABPC1
Cluster EST : UnigeneHs.387804 [ NCBI ]
CGAP (NCI)Hs.387804
Alternative Splicing GalleryENSG00000070756
Gene ExpressionPABPC1 [ NCBI-GEO ]   PABPC1 [ EBI - ARRAY_EXPRESS ]   PABPC1 [ SEEK ]   PABPC1 [ MEM ]
Gene Expression Viewer (FireBrowse)PABPC1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)26986
GTEX Portal (Tissue expression)PABPC1
Protein : pattern, domain, 3D structure
UniProt/SwissProtP11940   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP11940  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP11940
Splice isoforms : SwissVarP11940
PhosPhoSitePlusP11940
Domaine pattern : Prosite (Expaxy)PABC (PS51309)    RRM (PS50102)   
Domains : Interpro (EBI)Nucleotide-bd_a/b_plait    PABP_1234    PABP_HYD    RRM_dom    RRM_dom_euk   
Domain families : Pfam (Sanger)PABP (PF00658)    RRM_1 (PF00076)   
Domain families : Pfam (NCBI)pfam00658    pfam00076   
Domain families : Smart (EMBL)PolyA (SM00517)  RRM (SM00360)  RRM_1 (SM00361)  
Conserved Domain (NCBI)PABPC1
DMDM Disease mutations26986
Blocks (Seattle)PABPC1
PDB (SRS)1CVJ    1G9L    1JGN    1JH4    2K8G    2RQG    2RQH    2X04    3KTP    3KTR    3KUI    3KUJ    3KUR    3KUS    3KUT    3PKN    3PTH    4F02    4F25    4F26    5DX1    5DX8    5DXA   
PDB (PDBSum)1CVJ    1G9L    1JGN    1JH4    2K8G    2RQG    2RQH    2X04    3KTP    3KTR    3KUI    3KUJ    3KUR    3KUS    3KUT    3PKN    3PTH    4F02    4F25    4F26    5DX1    5DX8    5DXA   
PDB (IMB)1CVJ    1G9L    1JGN    1JH4    2K8G    2RQG    2RQH    2X04    3KTP    3KTR    3KUI    3KUJ    3KUR    3KUS    3KUT    3PKN    3PTH    4F02    4F25    4F26    5DX1    5DX8    5DXA   
PDB (RSDB)1CVJ    1G9L    1JGN    1JH4    2K8G    2RQG    2RQH    2X04    3KTP    3KTR    3KUI    3KUJ    3KUR    3KUS    3KUT    3PKN    3PTH    4F02    4F25    4F26    5DX1    5DX8    5DXA   
Structural Biology KnowledgeBase1CVJ    1G9L    1JGN    1JH4    2K8G    2RQG    2RQH    2X04    3KTP    3KTR    3KUI    3KUJ    3KUR    3KUS    3KUT    3PKN    3PTH    4F02    4F25    4F26    5DX1    5DX8    5DXA   
SCOP (Structural Classification of Proteins)1CVJ    1G9L    1JGN    1JH4    2K8G    2RQG    2RQH    2X04    3KTP    3KTR    3KUI    3KUJ    3KUR    3KUS    3KUT    3PKN    3PTH    4F02    4F25    4F26    5DX1    5DX8    5DXA   
CATH (Classification of proteins structures)1CVJ    1G9L    1JGN    1JH4    2K8G    2RQG    2RQH    2X04    3KTP    3KTR    3KUI    3KUJ    3KUR    3KUS    3KUT    3PKN    3PTH    4F02    4F25    4F26    5DX1    5DX8    5DXA   
SuperfamilyP11940
Human Protein AtlasENSG00000070756
Peptide AtlasP11940
HPRD05247
IPIIPI00008524   IPI00410017   IPI00796945   IPI00983704   IPI00983034   IPI00977833   IPI00909378   IPI00983162   IPI00983949   IPI00976567   IPI00982036   IPI00979685   IPI00981366   IPI00983093   IPI01013146   IPI00979703   IPI00980706   IPI00984994   IPI00975929   IPI00978377   
Protein Interaction databases
DIP (DOE-UCLA)P11940
IntAct (EBI)P11940
FunCoupENSG00000070756
BioGRIDPABPC1
STRING (EMBL)PABPC1
ZODIACPABPC1
Ontologies - Pathways
QuickGOP11940
Ontology : AmiGOnuclear-transcribed mRNA catabolic process, nonsense-mediated decay  nuclear-transcribed mRNA poly(A) tail shortening  mRNA splicing, via spliceosome  RNA binding  mRNA 3'-UTR binding  protein binding  nucleus  cytoplasm  cytosol  cytosol  focal adhesion  mRNA polyadenylation  translational initiation  protein C-terminus binding  poly(A) binding  poly(A) binding  poly(U) RNA binding  translation activator activity  cytoplasmic stress granule  membrane  intracellular ribonucleoprotein complex  gene silencing by RNA  cytoplasmic ribonucleoprotein granule  regulation of mRNA stability  positive regulation of viral genome replication  positive regulation of translation  mRNA stabilization  positive regulation of nuclear-transcribed mRNA poly(A) tail shortening  extracellular exosome  catalytic step 2 spliceosome  positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay  negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay  
Ontology : EGO-EBInuclear-transcribed mRNA catabolic process, nonsense-mediated decay  nuclear-transcribed mRNA poly(A) tail shortening  mRNA splicing, via spliceosome  RNA binding  mRNA 3'-UTR binding  protein binding  nucleus  cytoplasm  cytosol  cytosol  focal adhesion  mRNA polyadenylation  translational initiation  protein C-terminus binding  poly(A) binding  poly(A) binding  poly(U) RNA binding  translation activator activity  cytoplasmic stress granule  membrane  intracellular ribonucleoprotein complex  gene silencing by RNA  cytoplasmic ribonucleoprotein granule  regulation of mRNA stability  positive regulation of viral genome replication  positive regulation of translation  mRNA stabilization  positive regulation of nuclear-transcribed mRNA poly(A) tail shortening  extracellular exosome  catalytic step 2 spliceosome  positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay  negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay  
Pathways : BIOCARTARegulation of eIF4e and p70 S6 Kinase [Genes]   
Pathways : KEGGRNA transport    mRNA surveillance pathway    RNA degradation   
NDEx NetworkPABPC1
Atlas of Cancer Signalling NetworkPABPC1
Wikipedia pathwaysPABPC1
Orthology - Evolution
OrthoDB26986
GeneTree (enSembl)ENSG00000070756
Phylogenetic Trees/Animal Genes : TreeFamPABPC1
HOVERGENP11940
HOGENOMP11940
Homologs : HomoloGenePABPC1
Homology/Alignments : Family Browser (UCSC)PABPC1
Gene fusions - Rearrangements
Fusion : MitelmanSNX31/PABPC1 [8q22.2/8q22.3]  [t(8;8)(q22;q22)]  
Fusion: TCGASNX31 8q22.2 PABPC1 8q22.3 BLCA
Fusion Cancer (Beijing)RPS24 [10q22.3]  -  PABPC1 [8q22.3]  [FUSC000713]
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPABPC1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PABPC1
dbVarPABPC1
ClinVarPABPC1
1000_GenomesPABPC1 
Exome Variant ServerPABPC1
ExAC (Exome Aggregation Consortium)PABPC1 (select the gene name)
Genetic variants : HAPMAP26986
Genomic Variants (DGV)PABPC1 [DGVbeta]
DECIPHERPABPC1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisPABPC1 
Mutations
ICGC Data PortalPABPC1 
TCGA Data PortalPABPC1 
Broad Tumor PortalPABPC1
OASIS PortalPABPC1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPABPC1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPABPC1
intOGen PortalPABPC1
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch PABPC1
DgiDB (Drug Gene Interaction Database)PABPC1
DoCM (Curated mutations)PABPC1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PABPC1 (select a term)
intoGenPABPC1
Cancer3DPABPC1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM604679   
Orphanet
MedgenPABPC1
Genetic Testing Registry PABPC1
NextProtP11940 [Medical]
TSGene26986
GENETestsPABPC1
Target ValidationPABPC1
Huge Navigator PABPC1 [HugePedia]
snp3D : Map Gene to Disease26986
BioCentury BCIQPABPC1
ClinGenPABPC1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD26986
Chemical/Pharm GKB GenePA32880
Clinical trialPABPC1
Miscellaneous
canSAR (ICR)PABPC1 (select the gene name)
Probes
Litterature
PubMed220 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePABPC1
EVEXPABPC1
GoPubMedPABPC1
iHOPPABPC1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Sep 25 19:23:33 CEST 2017

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