Human Gene WSB1 (ENST00000262394.7_5) from GENCODE V47lift37
  Description: WD repeat and SOCS box containing 1, transcript variant 1 (from RefSeq NM_015626.10)
Gencode Transcript: ENST00000262394.7_5
Gencode Gene: ENSG00000109046.15_7
Transcript (Including UTRs)
   Position: hg19 chr17:25,621,140-25,642,952 Size: 21,813 Total Exon Count: 9 Strand: +
Coding Region
   Position: hg19 chr17:25,621,422-25,639,395 Size: 17,974 Coding Exon Count: 9 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:25,621,140-25,642,952)mRNA (may differ from genome)Protein (421 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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-  Comments and Description Text from UniProtKB
  ID: WSB1_HUMAN
DESCRIPTION: RecName: Full=WD repeat and SOCS box-containing protein 1; Short=WSB-1; AltName: Full=SOCS box-containing WD protein SWiP-1;
FUNCTION: Probable substrate-recognition component of a SCF-like ECS (Elongin-Cullin-SOCS-box protein) E3 ubiquitin ligase complex which mediates the ubiquitination and subsequent proteasomal degradation of target proteins. Recognizes type II iodothyronine deiodinase/DIO2. Confers constitutive instability to HIPK2 through proteasomal degradation.
PATHWAY: Protein modification; protein ubiquitination.
SUBUNIT: Interacts with DIO2. Component of the probable ECS(WSB1) E3 ubiquitin ligase complex which contains CUL5, RNF7/RBX2, Elongin BC complex and WSB1. Component of a probable ECS-like E3 ubiquitin-protein ligase complex which contains CUL5, RBX1, Elongin BC complex and WSB1. Interacts with CUL5, RNF7, TCEB1 and TCEB2. Binds to HIPK2 through WD40 repeats.
INTERACTION: Q9QZR5:Hipk2 (xeno); NbExp=5; IntAct=EBI-1171494, EBI-366905;
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 SOCS box domain.
SIMILARITY: Contains 6 WD repeats.

-  Primer design for this transcript
 

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Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           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: 126.31 RPKM in Nerve - Tibial
Total median expression: 3070.81 RPKM



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

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -106.70282-0.378 Picture PostScript Text
3' UTR -1164.003557-0.327 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
IPR020472 - G-protein_beta_WD-40_rep
IPR001496 - SOCS_C
IPR015943 - WD40/YVTN_repeat-like_dom
IPR001680 - WD40_repeat
IPR019775 - WD40_repeat_CS
IPR017986 - WD40_repeat_dom

Pfam Domains:
PF00400 - WD domain, G-beta repeat
PF07525 - SOCS box

SCOP Domains:
158235 - SOCS box-like
50952 - Soluble quinoprotein glucose dehydrogenase
50956 - Thermostable phytase (3-phytase)
50960 - TolB, C-terminal domain
63825 - YWTD domain
63829 - Calcium-dependent phosphotriesterase
69304 - Tricorn protease N-terminal domain
89372 - Fucose-specific lectin
101898 - NHL repeat
50965 - Galactose oxidase, central domain
75011 - 3-carboxy-cis,cis-mucoante lactonizing enzyme
101908 - Putative isomerase YbhE
117289 - Nucleoporin domain
50969 - YVTN repeat-like/Quinoprotein amine dehydrogenase
50974 - Nitrous oxide reductase, N-terminal domain
50978 - WD40 repeat-like
50985 - RCC1/BLIP-II
50993 - Peptidase/esterase 'gauge' domain
69322 - Tricorn protease domain 2
50998 - Quinoprotein alcohol dehydrogenase-like
51004 - C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase
82171 - DPP6 N-terminal domain-like
51735 - NAD(P)-binding Rossmann-fold domains

ModBase Predicted Comparative 3D Structure on Q9Y6I7
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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 DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004842 ubiquitin-protein transferase activity
GO:0005515 protein binding

Biological Process:
GO:0000209 protein polyubiquitination
GO:0008150 biological_process
GO:0016567 protein ubiquitination
GO:0035556 intracellular signal transduction
GO:0043687 post-translational protein modification

Cellular Component:
GO:0005622 intracellular
GO:0005829 cytosol


-  Descriptions from all associated GenBank mRNAs
  AL110243 - Homo sapiens mRNA; cDNA DKFZp564B0482 (from clone DKFZp564B0482).
AK307114 - Homo sapiens cDNA, FLJ97062.
AL110269 - Homo sapiens mRNA; cDNA DKFZp564A122 (from clone DKFZp564A122).
AK300262 - Homo sapiens cDNA FLJ59301 complete cds, highly similar to WD repeat and SOCS box-containing protein 1.
AK294516 - Homo sapiens cDNA FLJ58059 complete cds, highly similar to WD repeat and SOCS box-containing protein 1.
BC048007 - Homo sapiens WD repeat and SOCS box-containing 1, mRNA (cDNA clone IMAGE:5296963).
AK074917 - Homo sapiens cDNA FLJ90436 fis, clone NT2RP3000820, weakly similar to PUTATIVE SERINE/THREONINE-PROTEIN KINASE PKWA (EC 2.7.1.-).
AK222576 - Homo sapiens mRNA for WD SOCS-box protein 1 isoform 1 variant, clone: CAS03436.
AF069313 - Homo sapiens WSB1 protein (WSB1) mRNA, complete cds.
AF240696 - Homo sapiens WSB1 isoform 2 (WSB1) mRNA, complete cds.
BC021110 - Homo sapiens WD repeat and SOCS box-containing 1, mRNA (cDNA clone MGC:31864 IMAGE:4865448), complete cds.
JD563574 - Sequence 544598 from Patent EP1572962.
AF112205 - Homo sapiens WSB-1 protein mRNA, complete cds.
AF106683 - Homo sapiens WSB-1 mRNA, complete cds.
JD124791 - Sequence 105815 from Patent EP1572962.
AF072880 - Homo sapiens SOCS box-containing WD protein SWiP-1 (SWIP1) mRNA, complete cds.
JD023658 - Sequence 4682 from Patent EP1572962.
JD028046 - Sequence 9070 from Patent EP1572962.
AB463346 - Synthetic construct DNA, clone: pF1KB8599, Homo sapiens WSB1 gene for WD repeat and SOCS box-containing 1, without stop codon, in Flexi system.
AM393409 - Synthetic construct Homo sapiens clone IMAGE:100001945 for hypothetical protein (WSB1 gene).
AM393665 - Synthetic construct Homo sapiens clone IMAGE:100001939 for hypothetical protein (WSB1 gene).
CU676828 - Synthetic construct Homo sapiens gateway clone IMAGE:100021971 5' read WSB1 mRNA.
HQ447739 - Synthetic construct Homo sapiens clone IMAGE:100071070; CCSB012631_02 WD repeat and SOCS box-containing 1 (WSB1) gene, encodes complete protein.
AK057082 - Homo sapiens cDNA FLJ32520 fis, clone SMINT1000137, weakly similar to Homo sapiens WSB1 isoform 2 (WSB1) mRNA.
DQ600825 - Homo sapiens piRNA piR-38891, complete sequence.
AF147442 - Homo sapiens full length insert cDNA clone YY19D10.
JD024501 - Sequence 5525 from Patent EP1572962.
JD034706 - Sequence 15730 from Patent EP1572962.
AF106684 - Homo sapiens WSB-1 isoform mRNA, complete cds.
BC005226 - Homo sapiens WD repeat and SOCS box-containing 1, mRNA (cDNA clone IMAGE:3933251), partial cds.
JD510629 - Sequence 491653 from Patent EP1572962.
JD546087 - Sequence 527111 from Patent EP1572962.
JD200328 - Sequence 181352 from Patent EP1572962.
JD290809 - Sequence 271833 from Patent EP1572962.
JD049910 - Sequence 30934 from Patent EP1572962.
JD294751 - Sequence 275775 from Patent EP1572962.
JD496068 - Sequence 477092 from Patent EP1572962.
JD076466 - Sequence 57490 from Patent EP1572962.
JD462923 - Sequence 443947 from Patent EP1572962.
JD462924 - Sequence 443948 from Patent EP1572962.
JD351238 - Sequence 332262 from Patent EP1572962.
JD564532 - Sequence 545556 from Patent EP1572962.
JD558456 - Sequence 539480 from Patent EP1572962.
JD071004 - Sequence 52028 from Patent EP1572962.
JD158457 - Sequence 139481 from Patent EP1572962.
JD158458 - Sequence 139482 from Patent EP1572962.
JD208129 - Sequence 189153 from Patent EP1572962.
JD097407 - Sequence 78431 from Patent EP1572962.
JD050805 - Sequence 31829 from Patent EP1572962.
JD452547 - Sequence 433571 from Patent EP1572962.
JD366115 - Sequence 347139 from Patent EP1572962.
JD250926 - Sequence 231950 from Patent EP1572962.
JD250927 - Sequence 231951 from Patent EP1572962.
JD380237 - Sequence 361261 from Patent EP1572962.
JD298973 - Sequence 279997 from Patent EP1572962.
JD303378 - Sequence 284402 from Patent EP1572962.
JD182370 - Sequence 163394 from Patent EP1572962.
JD538903 - Sequence 519927 from Patent EP1572962.

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

Protein Q9Y6I7 (Reactome details) participates in the following event(s):

R-HSA-983157 Interaction of E3 with substrate and E2-Ub complex
R-HSA-983147 Release of E3 from polyubiquitinated substrate
R-HSA-983140 Transfer of Ub from E2 to substrate and release of E2
R-HSA-8952039 NEDD8:AcM-UBE2F binds CRL5 E3 ubiquitin ligase complex
R-HSA-8955241 CAND1 binds cytosolic CRL E3 ubiquitin ligases
R-HSA-8952044 AcM-UBE2F transfers NEDD8 to CRL5 E3 ubiquitin ligase complex
R-HSA-8955289 COMMDs displace CAND1 from cytosolic CRL E3 ubiquitin ligase complexes
R-HSA-8956040 COP9 signalosome deneddylates cytosolic CRL E3 ubiquitin ligase complexes
R-HSA-983168 Antigen processing: Ubiquitination & Proteasome degradation
R-HSA-983169 Class I MHC mediated antigen processing & presentation
R-HSA-1280218 Adaptive Immune System
R-HSA-8951664 Neddylation
R-HSA-168256 Immune System
R-HSA-597592 Post-translational protein modification
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000262394.1, ENST00000262394.2, ENST00000262394.3, ENST00000262394.4, ENST00000262394.5, ENST00000262394.6, NM_015626, Q9NRB1, Q9UBH9, Q9UG25, Q9UNN6, Q9Y656, Q9Y6I7, SWIP1, uc317gzs.1, uc317gzs.2, WSB1_HUMAN
UCSC ID: ENST00000262394.7_5
RefSeq Accession: NM_015626.10
Protein: Q9Y6I7 (aka WSB1_HUMAN)

-  Gene Model Information
  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.