Human Gene PCBP2 (uc001sdc.4) Description and Page Index
  Description: Homo sapiens poly(rC) binding protein 2 (PCBP2), transcript variant 1, mRNA.
RefSeq Summary (NM_005016): The protein encoded by this gene appears to be multifunctional. Along with PCBP-1 and hnRNPK, it is one of the major cellular poly(rC)-binding proteins. The encoded protein contains three K-homologous (KH) domains which may be involved in RNA binding. Together with PCBP-1, this protein also functions as a translational coactivator of poliovirus RNA via a sequence-specific interaction with stem-loop IV of the IRES, promoting poliovirus RNA replication by binding to its 5'-terminal cloverleaf structure. It has also been implicated in translational control of the 15-lipoxygenase mRNA, human papillomavirus type 16 L2 mRNA, and hepatitis A virus RNA. The encoded protein is also suggested to play a part in formation of a sequence-specific alpha-globin mRNP complex which is associated with alpha-globin mRNA stability. This multiexon structural mRNA is thought to be retrotransposed to generate PCBP-1, an intronless gene with functions similar to that of PCBP2. This gene and PCBP-1 have paralogous genes (PCBP3 and PCBP4) which are thought to have arisen as a result of duplication events of entire genes. This gene also has two processed pseudogenes (PCBP2P1 and PCBP2P2). Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jan 2018].
Transcript (Including UTRs)
   Position: hg19 chr12:53,845,886-53,874,946 Size: 29,061 Total Exon Count: 15 Strand: +
Coding Region
   Position: hg19 chr12:53,848,585-53,873,226 Size: 24,642 Coding Exon Count: 14 

Page IndexSequence and LinksCTDGene AllelesRNA-Seq ExpressionMicroarray Expression
RNA StructureProtein StructureOther SpeciesmRNA DescriptionsPathwaysOther Names
Model InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:53,845,886-53,874,946)mRNA (may differ from genome)Protein (366 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMGIOMIM
PubMedReactomeStanford SOURCEUniProtKBWikipedia

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene
  • C006780 bisphenol A
  • D000082 Acetaminophen
  • D001564 Benzo(a)pyrene
  • C111118 2',3,3',4',5-pentachloro-4-hydroxybiphenyl
  • C023514 2,6-dinitrotoluene
  • C472791 3-(4'-hydroxy-3'-adamantylbiphenyl-4-yl)acrylic acid
  • C009505 4,4'-diaminodiphenylmethane
  • C477187 5-(4-methylpiperazin-1-yl)-2-(2'-(3,4-dimethoxyphenyl)-5'-benzimidazolyl)benzimidazole
  • D015123 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide
  • C099555 CD 437
          more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 109.36 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 3062.66 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -71.70350-0.205 Picture PostScript Text
3' UTR -503.521720-0.293 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  Pfam Domains:
PF00013 - KH domain
PF07650 - KH domain

SCOP Domains:
54791 - Eukaryotic type KH-domain (KH-domain type I)
54814 - Prokaryotic type KH domain (KH-domain type II)

ModBase Predicted Comparative 3D Structure on Q15366-2
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Descriptions from all associated GenBank mRNAs
  AB188306 - Homo sapiens PCBP2 mRNA for poly(rC) binding protein 2, complete cds.
BC071942 - Homo sapiens poly(rC) binding protein 2, mRNA (cDNA clone MGC:88629 IMAGE:6424433), complete cds.
GQ900927 - Homo sapiens clone HEL-T-39 epididymis secretory sperm binding protein mRNA, complete cds.
BC035420 - Homo sapiens poly(rC) binding protein 2, mRNA (cDNA clone IMAGE:3858119).
AK292141 - Homo sapiens cDNA FLJ77432 complete cds, highly similar to Homo sapiens poly(rC) binding protein 2 (PCBP2), transcript variant 2, mRNA.
BC001155 - Homo sapiens poly(rC) binding protein 2, mRNA (cDNA clone MGC:1457 IMAGE:3356341), complete cds.
AB208825 - Homo sapiens mRNA for poly(rC)-binding protein 2 isoform b variant protein.
AK302067 - Homo sapiens cDNA FLJ58339 complete cds, highly similar to Poly(rC)-binding protein 2.
AK225357 - Homo sapiens mRNA for poly(rC)-binding protein 2 isoform b variant, clone: HEP17609.
X78136 - H.sapiens hnRNP-E2 mRNA.
BC107688 - Homo sapiens poly(rC) binding protein 2, mRNA (cDNA clone MGC:110998 IMAGE:5395926), complete cds.
AB464035 - Synthetic construct DNA, clone: pF1KB3111, Homo sapiens PCBP2 gene for poly(rC) binding protein 2, without stop codon, in Flexi system.
AK299210 - Homo sapiens cDNA FLJ54752 complete cds, highly similar to Poly(rC)-binding protein 2.
AK023529 - Homo sapiens cDNA FLJ13467 fis, clone PLACE1003519, highly similar to H.sapiens hnRNP-E2 mRNA.
AK130583 - Homo sapiens cDNA FLJ27073 fis, clone SPL02032, highly similar to POLY(RC) BINDING PROTEIN 2.
AK123458 - Homo sapiens cDNA FLJ41464 fis, clone BRSTN2017379, highly similar to POLY(RC) BINDING PROTEIN 2.
AK296930 - Homo sapiens cDNA FLJ58476 complete cds, highly similar to Poly(rC)-binding protein 2.
JD438797 - Sequence 419821 from Patent EP1572962.
JD094045 - Sequence 75069 from Patent EP1572962.
JD253011 - Sequence 234035 from Patent EP1572962.
KF041153 - Homo sapiens lncRNA (TUC338) gene, complete sequence.
AY952882 - Homo sapiens antigen MMSA-2 mRNA sequence.
JD329896 - Sequence 310920 from Patent EP1572962.
JD019843 - Sequence 867 from Patent EP1572962.
JD027925 - Sequence 8949 from Patent EP1572962.
JD027513 - Sequence 8537 from Patent EP1572962.
JD187986 - Sequence 169010 from Patent EP1572962.
JD034548 - Sequence 15572 from Patent EP1572962.
LQ655962 - Sequence 20 from Patent EP3081645.
CU690633 - Synthetic construct Homo sapiens gateway clone IMAGE:100020929 3' read MAP3K12 mRNA.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q15366 (Reactome details) participates in the following event(s):

R-HSA-72103 Formation of pre-mRNPs
R-HSA-990528 Interaction of PCBP2 with MAVS
R-HSA-72107 Formation of the Spliceosomal E complex
R-HSA-72124 Formation of the Spliceosomal A Complex
R-HSA-72127 Formation of the Spliceosomal B Complex
R-HSA-72130 Formation of an intermediate Spliceosomal C (Bact) complex
R-HSA-990526 Recruitment of AIP4 and K48 ubiquitination of MAVS/IPS-1
R-HSA-72143 Lariat Formation and 5'-Splice Site Cleavage
R-HSA-72139 Formation of the active Spliceosomal C (B*) complex
R-HSA-156661 Formation of Exon Junction Complex
R-HSA-72203 Processing of Capped Intron-Containing Pre-mRNA
R-HSA-72163 mRNA Splicing - Major Pathway
R-HSA-936440 Negative regulators of DDX58/IFIH1 signaling
R-HSA-8953854 Metabolism of RNA
R-HSA-72172 mRNA Splicing
R-HSA-168928 DDX58/IFIH1-mediated induction of interferon-alpha/beta
R-HSA-168249 Innate Immune System
R-HSA-168256 Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: NM_005016, NP_005007, Q15366-2
UCSC ID: uc001sdc.4
RefSeq Accession: NM_005016
Protein: Q15366-2, splice isoform of Q15366 CCDS: CCDS8859.1, CCDS44900.1, CCDS44901.1, CCDS55830.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_005016.5
exon count: 15CDS single in 3' UTR: no RNA size: 3187
ORF size: 1101CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2051.00frame shift in genome: no % Coverage: 99.50
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 1
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.