Human Gene SOCS4 (uc001xbp.3) Description and Page Index
  Description: Homo sapiens suppressor of cytokine signaling 4 (SOCS4), transcript variant 2, mRNA.
RefSeq Summary (NM_080867): The protein encoded by this gene contains a SH2 domain and a SOCS BOX domain. The protein thus belongs to the suppressor of cytokine signaling (SOCS), also known as STAT-induced STAT inhibitor (SSI), protein family. SOCS family members are known to be cytokine-inducible negative regulators of cytokine signaling. Two alternatively spliced transcript variants encoding the same protein have been found for this gene. [provided by RefSeq, Jul 2008].
Transcript (Including UTRs)
   Position: hg19 chr14:55,493,844-55,516,206 Size: 22,363 Total Exon Count: 2 Strand: +
Coding Region
   Position: hg19 chr14:55,509,760-55,511,082 Size: 1,323 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr14:55,493,844-55,516,206)mRNA (may differ from genome)Protein (440 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCLynxMGIneXtProt
OMIMPubMedReactomeStanford SOURCETreefamUniProtKB
Wikipedia

-  Comments and Description Text from UniProtKB
  ID: SOCS4_HUMAN
DESCRIPTION: RecName: Full=Suppressor of cytokine signaling 4; Short=SOCS-4; AltName: Full=Suppressor of cytokine signaling 7; Short=SOCS-7;
FUNCTION: SOCS family proteins form part of a classical negative feedback system that regulates cytokine signal transduction. May be a substrate-recognition component of a SCF-like ECS (Elongin BC-CUL2/5-SOCS-box protein) E3 ubiquitin-protein ligase complex which mediates the ubiquitination and subsequent proteasomal degradation of target proteins. Inhibits for instance EGF signaling by mediating the degradation of the EGF receptor/EGFR.
PATHWAY: Protein modification; protein ubiquitination.
INDUCTION: Up-regulated by EGF.
DOMAIN: The SOCS box domain mediates the interaction with the Elongin BC complex, an adapter module in different E3 ubiquitin ligase complexes (By similarity).
SIMILARITY: Contains 1 SH2 domain.
SIMILARITY: Contains 1 SOCS box domain.

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): SOCS4
CDC HuGE Published Literature: SOCS4

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 11.00 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 185.86 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 -166.14436-0.381 Picture PostScript Text
3' UTR -1253.425124-0.245 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
  InterPro Domains: Graphical view of domain structure
IPR000980 - SH2
IPR022252 - SOCS
IPR001496 - SOCS_C

Pfam Domains:
PF00017 - SH2 domain
PF07525 - SOCS box
PF12610 - Suppressor of cytokine signalling

SCOP Domains:
55550 - SH2 domain

Protein Data Bank (PDB) 3-D Structure
MuPIT help

2IZV
- X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q8WXH5
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 orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004860 protein kinase inhibitor activity
GO:0005515 protein binding

Biological Process:
GO:0007175 negative regulation of epidermal growth factor-activated receptor activity
GO:0009968 negative regulation of signal transduction
GO:0016567 protein ubiquitination
GO:0019221 cytokine-mediated signaling pathway
GO:0032436 positive regulation of proteasomal ubiquitin-dependent protein catabolic process
GO:0035556 intracellular signal transduction
GO:0040008 regulation of growth
GO:0046426 negative regulation of JAK-STAT cascade

Cellular Component:
GO:0005737 cytoplasm


-  Descriptions from all associated GenBank mRNAs
  BX161418 - human full-length cDNA clone CS0DD006YF02 of Neuroblastoma of Homo sapiens (human).
CR933659 - Homo sapiens mRNA; cDNA DKFZp686J1568 (from clone DKFZp686J1568).
BC060790 - Homo sapiens suppressor of cytokine signaling 4, mRNA (cDNA clone MGC:71581 IMAGE:30338646), complete cds.
AK124083 - Homo sapiens cDNA FLJ42089 fis, clone TESOP2001166, highly similar to Suppressor of cytokine signaling 4.
BX648734 - Homo sapiens mRNA; cDNA DKFZp686J0928 (from clone DKFZp686J0928).
AF424815 - Homo sapiens SH2 domain containing SOCS box protein SOCS4 mRNA, complete cds.
JD111347 - Sequence 92371 from Patent EP1572962.
AB464721 - Synthetic construct DNA, clone: pF1KB8830, Homo sapiens SOCS4 gene for suppressor of cytokine signaling 4, without stop codon, in Flexi system.
CU687426 - Synthetic construct Homo sapiens gateway clone IMAGE:100021153 5' read SOCS4 mRNA.
HQ448516 - Synthetic construct Homo sapiens clone IMAGE:100071950; CCSB010853_03 suppressor of cytokine signaling 4 (SOCS4) gene, encodes complete protein.
KJ895373 - Synthetic construct Homo sapiens clone ccsbBroadEn_04767 SOCS4 gene, encodes complete protein.
AK127299 - Homo sapiens cDNA FLJ45366 fis, clone BRHIP3017109, highly similar to Mus musculus suppressor of cytokine signaling 5 (Socs5).
AK126195 - Homo sapiens cDNA FLJ44207 fis, clone THYMU3001939.
JD429263 - Sequence 410287 from Patent EP1572962.
JD229478 - Sequence 210502 from Patent EP1572962.
JD046669 - Sequence 27693 from Patent EP1572962.
JD533962 - Sequence 514986 from Patent EP1572962.
JD561646 - Sequence 542670 from Patent EP1572962.
JD189024 - Sequence 170048 from Patent EP1572962.
JD063410 - Sequence 44434 from Patent EP1572962.
AK056685 - Homo sapiens cDNA FLJ32123 fis, clone PEBLM1000174.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04630 - Jak-STAT signaling pathway
hsa04910 - Insulin signaling pathway
hsa04930 - Type II diabetes mellitus

Reactome (by CSHL, EBI, and GO)

Protein Q8WXH5 (Reactome details) participates in the following event(s):

R-HSA-8939242 RUNX1 regulates transcription of genes involved in differentiation of keratinocytes
R-HSA-8878171 Transcriptional regulation by RUNX1
R-HSA-212436 Generic Transcription Pathway
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-74160 Gene expression (Transcription)

-  Other Names for This Gene
  Alternate Gene Symbols: NM_080867, NP_955453, Q8WXH5, SOCS4_HUMAN, SOCS7
UCSC ID: uc001xbp.3
RefSeq Accession: NM_080867
Protein: Q8WXH5 (aka SOCS4_HUMAN or SOC4_HUMAN)
CCDS: CCDS9722.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_080867.2
exon count: 2CDS single in 3' UTR: no RNA size: 6900
ORF size: 1323CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2648.00frame shift in genome: no % Coverage: 99.75
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: 0
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.