WSB2

gene
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Also known as SBA2MGC10210

Summary

WSB2 (WD repeat and SOCS box containing 2, HGNC:19222) is a protein-coding gene on chromosome 12q24.23, encoding WD repeat and SOCS box-containing protein 2 (Q9NYS7). May be a 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.

This gene encodes a member of the WD-protein subfamily. The encoded protein contains five WD-repeats spanning most of the protein and an SOCS box in the C-terminus. The SOCS box may act as a bridge between specific substrate-binding domains and E3 ubiquitin protein ligases. Three transcript variants encoding different isoforms have been found for this gene.

Source: NCBI Gene 55884 — RefSeq curated summary.

At a glance

  • Gene–disease (curated): complex neurodevelopmental disorder (Limited, GenCC)
  • GWAS associations: 2
  • Clinical variants (ClinVar): 20 total — 2 pathogenic
  • MANE Select transcript: NM_018639

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:19222
Approved symbolWSB2
NameWD repeat and SOCS box containing 2
Location12q24.23
Locus typegene with protein product
StatusApproved
AliasesSBA2, MGC10210
Ensembl geneENSG00000176871
Ensembl biotypeprotein_coding
Entrez55884

Gene structure

Transcript identifiers

Ensembl transcripts: 16 — 9 protein_coding, 3 retained_intron, 2 protein_coding_CDS_not_defined, 2 nonsense_mediated_decay

ENST00000315436, ENST00000441406, ENST00000535496, ENST00000536602, ENST00000536738, ENST00000537945, ENST00000540129, ENST00000542726, ENST00000543186, ENST00000543218, ENST00000544233, ENST00000614776, ENST00000900384, ENST00000927429, ENST00000927430, ENST00000962718

RefSeq mRNA: 3 — MANE Select: NM_018639 NM_001278557, NM_001278558, NM_018639

CCDS: CCDS61251, CCDS61252, CCDS9186

Canonical transcript exons

ENST00000315436 — 9 exons

ExonStartEnd
ENSE00001303814118032687118034358
ENSE00002241893118061036118061179
ENSE00003478142118035214118035324
ENSE00003484297118043133118043377
ENSE00003548200118036338118036510
ENSE00003589512118052310118052478
ENSE00003617943118042841118042972
ENSE00003627154118034986118035093
ENSE00003672656118038288118038388

Expression profiles

Bgee: expression breadth ubiquitous, 299 present calls, max score 98.99.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 47.0049 / max 382.0101, expressed in 1819 samples.

FANTOM5 promoters (12 alternative TSS)

Promoter IDTPM avgSamples expressed
13353340.48071816
1335351.2721855
1335321.2592826
1335241.0477600
1335300.8865546
1335340.7452447
1335310.6540422
1335360.3205118
1335260.2552101
1335290.030511

Top tissues by expression

299 total, by Bgee expression score (0-100, higher = more expressed):

TissueAnatomy IDExpression scoreQuality
superior frontal gyrusUBERON:000266198.99gold quality
postcentral gyrusUBERON:000258198.97gold quality
orbitofrontal cortexUBERON:000416798.93gold quality
parietal lobeUBERON:000187298.92gold quality
entorhinal cortexUBERON:000272898.92gold quality
endothelial cellCL:000011598.81gold quality
Brodmann (1909) area 46UBERON:000648398.78gold quality
Brodmann (1909) area 23UBERON:001355498.77gold quality
cortical plateUBERON:000534398.75gold quality
medial globus pallidusUBERON:000247798.66gold quality
prefrontal cortexUBERON:000045198.61gold quality
substantia nigra pars compactaUBERON:000196598.54gold quality
lateral nuclear group of thalamusUBERON:000273698.54gold quality
globus pallidusUBERON:000187598.51gold quality
substantia nigra pars reticulataUBERON:000196698.44gold quality
frontal cortexUBERON:000187098.37gold quality
frontal lobeUBERON:001652598.37gold quality
dorsolateral prefrontal cortexUBERON:000983498.35gold quality
dorsal motor nucleus of vagus nerveUBERON:000287098.29gold quality
cerebral cortexUBERON:000095698.25gold quality
neocortexUBERON:000195098.23gold quality
temporal lobeUBERON:000187198.21gold quality
Brodmann (1909) area 9UBERON:001354098.16gold quality
medulla oblongataUBERON:000189698.10gold quality
subthalamic nucleusUBERON:000190698.01gold quality
superior vestibular nucleusUBERON:000722797.99gold quality
telencephalonUBERON:000189397.95gold quality
Ammon’s hornUBERON:000195497.94gold quality
occipital lobeUBERON:000202197.92gold quality
lateral globus pallidusUBERON:000247697.92gold quality

Single-cell (SCXA)

Detected in 3 experiment(s), a significant marker in 2.

ExperimentMarker?Max mean expression
E-HCAD-13yes144.52
E-MTAB-7249no3488.18
E-ANND-3no0.00

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

55 targeting WSB2, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-3646100.0073.565283
HSA-MIR-186-5P99.9970.833707
HSA-MIR-314899.9775.066478
HSA-MIR-3688-3P99.9772.022834
HSA-MIR-365899.9673.874379
HSA-MIR-6778-3P99.9667.292693
HSA-MIR-6835-3P99.9370.492904
HSA-MIR-627-3P99.9071.423316
HSA-MIR-221-3P99.8671.561329
HSA-MIR-222-3P99.8671.351337
HSA-MIR-3617-5P99.7569.411968
HSA-MIR-64199.7569.351975
HSA-MIR-7856-5P99.7569.992901
HSA-MIR-187-5P99.7470.261404
HSA-MIR-430699.7270.503630
HSA-MIR-371499.7170.742671
HSA-MIR-6757-3P99.6366.881089
HSA-MIR-186-3P99.5166.241685
HSA-MIR-469699.4867.481040
HSA-MIR-32-3P99.3668.202517
HSA-MIR-6507-5P99.3670.462524
HSA-MIR-185-5P99.3568.602497
HSA-MIR-464499.3569.122514
HSA-MIR-6719-3P99.2967.781387
HSA-MIR-5589-3P99.2968.301443
HSA-MIR-6731-5P99.2867.422375
HSA-MIR-808599.2867.562362
HSA-MIR-324-3P99.2666.311034
HSA-MIR-312599.1468.492269
HSA-MIR-7151-3P99.0469.722370

Literature-anchored findings (GeneRIF, showing 6)

  • SBA2 gene might be a promising novel biomarker of cell differentiation in colorectal cancer and its biological features need further studies. (PMID:11819827)
  • This report provides the first evidence that WSB-2 is a regulator of IL-21R expression and IL-21-induced signal transduction. (PMID:20059963)
  • This is the first report to demonstrate the effects of WSB2 on melanoma cell function. (PMID:31103822)
  • miR285p inhibits the migration of breast cancer by regulating WSB2. (PMID:32945370)
  • Elevated expression of WSB2 degrades p53 and activates the IGFBP3-AKT-mTOR-dependent pathway to drive hepatocellular carcinoma. (PMID:38177295)
  • WSB1/2 target chromatin-bound lysine-methylated RelA for proteasomal degradation and NF-kappaB termination. (PMID:38452206)

Cross-species orthologs

3 orthologs

OrganismSymbolGene ID
danio_reriowsb2ENSDARG00000058608
mus_musculusWsb2ENSMUSG00000029364
rattus_norvegicusWsb2ENSRNOG00000001135

Paralogs (1): WSB1 (ENSG00000109046)

Protein

Protein identifiers

WD repeat and SOCS box-containing protein 2Q9NYS7 (reviewed: Q9NYS7)

Alternative names: CS box-containing WD protein

All UniProt accessions (5): Q9NYS7, F5GXB6, F5H024, F5H280, F5H2L7

UniProt curated annotations — full annotation on UniProt →

Function. May be a 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.

Domain organisation. The SOCS box domain mediates the interaction with the Elongin BC complex, an adapter module in different E3 ubiquitin ligase complexes.

Pathway. Protein modification; protein ubiquitination.

Isoforms (3)

UniProt IDNamesCanonical?
Q9NYS7-11yes
Q9NYS7-22
Q9NYS7-33

RefSeq proteins (3): NP_001265486, NP_001265487, NP_061109* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR001496SOCS_boxDomain
IPR001680WD40_rptRepeat
IPR015943WD40/YVTN_repeat-like_dom_sfHomologous_superfamily
IPR019775WD40_repeat_CSConserved_site
IPR020472WD40_PAC1Repeat
IPR036036SOCS_box-like_dom_sfHomologous_superfamily
IPR036322WD40_repeat_dom_sfHomologous_superfamily
IPR051983WSB_SOCS-box_domainFamily

Pfam: PF00400, PF07525

UniProt features (14 total): repeat 7, splice variant 2, sequence conflict 2, chain 1, domain 1, region of interest 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q9NYS7-F184.840.68

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

IDPathway
R-HSA-8951664Neddylation

MSigDB gene sets: 236 (showing top): GCM_MAP4K4, BORCZUK_MALIGNANT_MESOTHELIOMA_UP, BERENJENO_ROCK_SIGNALING_NOT_VIA_RHOA_DN, YAATNRNNNYNATT_UNKNOWN, GCM_GSPT1, GRAESSMANN_APOPTOSIS_BY_DOXORUBICIN_UP, HASLINGER_B_CLL_WITH_MUTATED_VH_GENES, MITSIADES_RESPONSE_TO_APLIDIN_DN, DEURIG_T_CELL_PROLYMPHOCYTIC_LEUKEMIA_DN, CREIGHTON_ENDOCRINE_THERAPY_RESISTANCE_5, TGACATY_UNKNOWN, GOBP_POST_TRANSLATIONAL_PROTEIN_MODIFICATION, GOBP_PROTEIN_POLYUBIQUITINATION, TATA_C, GCM_NF2

GO Biological Process (3): protein polyubiquitination (GO:0000209), intracellular signal transduction (GO:0035556), protein ubiquitination (GO:0016567)

GO Molecular Function (1): protein binding (GO:0005515)

GO Cellular Component (1): cytosol (GO:0005829)

Reactome top-level categories

Rollup of top-1 pathways:

CategoryPathways
Post-translational protein modification1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
protein ubiquitination1
intracellular anatomical structure1
signal transduction1
protein modification by small protein conjugation1
binding1
cytoplasm1
cellular anatomical structure1

Protein interactions and networks

STRING

1723 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
WSB2MARCHF5Q9NX47616
WSB2DRAP1Q14919519
WSB2ASB3Q9Y575470
WSB2FAM168BA1KXE4463
WSB2RNF7Q9UBF6419
WSB2SLC67A1-ASQ8N1D0417
WSB2DCAF5Q96JK2396
WSB2DCAF16Q9NXF7387
WSB2ASB12Q8WXK4385
WSB2CMTM4Q8IZR5384
WSB2PCMTD2Q9NV79383
WSB2LRRC41Q15345381
WSB2RAB40AQ8WXH6375
WSB2SOCS7O14512369
WSB2CUL5Q93034362

IntAct

33 interactions, top by confidence:

ABTypeScore
WSB2SNIP1psi-mi:“MI:0914”(association)0.640
WSB2PFDN2psi-mi:“MI:0915”(physical association)0.560
WSB2PFDN5psi-mi:“MI:0915”(physical association)0.560
WSB2UBBpsi-mi:“MI:0914”(association)0.530
RNF7SOCS7psi-mi:“MI:0914”(association)0.530
WSB2BCL2L1psi-mi:“MI:0914”(association)0.530
HSP90AB1WSB2psi-mi:“MI:0915”(physical association)0.400
WSB2FKBP5psi-mi:“MI:0915”(physical association)0.400
WSB2Hacd3psi-mi:“MI:0915”(physical association)0.400
WSB2HSF2psi-mi:“MI:0915”(physical association)0.400
NUDCWSB2psi-mi:“MI:0915”(physical association)0.400
WSB2NUDCD3psi-mi:“MI:0915”(physical association)0.400
WSB2psi-mi:“MI:0915”(physical association)0.400
WSB2SGTApsi-mi:“MI:0915”(physical association)0.400
WSB2Usp19psi-mi:“MI:0915”(physical association)0.400
STIP1WSB2psi-mi:“MI:0915”(physical association)0.400
FKBPLWSB2psi-mi:“MI:0915”(physical association)0.400
CACYBPWSB2psi-mi:“MI:0915”(physical association)0.400
WSB2NUDCD2psi-mi:“MI:0915”(physical association)0.400
WSB2AARSD1psi-mi:“MI:0915”(physical association)0.400
WSB2PPP5Cpsi-mi:“MI:0915”(physical association)0.400
CUL5DDX3Xpsi-mi:“MI:0914”(association)0.350
WSB2ARIH2psi-mi:“MI:0914”(association)0.350
RNF7SOCS2psi-mi:“MI:0914”(association)0.350
BCL2L1UBBpsi-mi:“MI:0914”(association)0.350
WSB2ELOBpsi-mi:“MI:0914”(association)0.350

BioGRID (593): SNIP1 (Affinity Capture-MS), CLASRP (Affinity Capture-MS), ACIN1 (Affinity Capture-MS), CCDC9 (Affinity Capture-MS), CUL5 (Affinity Capture-MS), ZC3H14 (Affinity Capture-MS), ARIH2 (Affinity Capture-MS), C17orf85 (Affinity Capture-MS), UBB (Affinity Capture-MS), PNN (Affinity Capture-MS), ISY1 (Affinity Capture-MS), RNPS1 (Affinity Capture-MS), NKTR (Affinity Capture-MS), AMBRA1 (Affinity Capture-MS), SUPT6H (Affinity Capture-MS)

ESM2 similar proteins: A4FUF0, A4Q9F4, B0K012, E9PTA2, O15315, O35719, O43502, O54804, O54929, O94759, P0C0T1, P42694, Q0V8J1, Q0VGM9, Q3U2J5, Q3ZBL5, Q49A26, Q5BIM1, Q5R7T2, Q5RJZ1, Q5RKH0, Q5ZIA0, Q5ZLS7, Q6DC64, Q6DFV5, Q6IE70, Q6NYU2, Q6P4H8, Q7Z624, Q80VL1, Q86W50, Q8BYN3, Q8CIW5, Q8NHH1, Q8R1C6, Q8R1G1, Q8R2J9, Q8R2Y8, Q91YD4, Q922P9

Diamond homologs: A0CH87, A0DB19, A1CF18, A1CUD6, A7S338, A8NEG8, A8XZJ9, A9V790, B0LSW3, B0XM00, B2AEZ5, B2B766, B2VWG7, B3MEY6, B3NPW0, B3S4I5, B4GAJ1, B4HSL3, B4JWA1, B4KT48, B4LQ21, B4MY65, B4P6P9, B4QHG6, B5X3C4, B5X3Z6, B6GZD3, B6HP56, B6QC06, B7FNU7, B7PS00, B8N9H4, B8P4B0, B8PD53, B9WD30, C0NRC6, C0S902, C1GB49, C3XVT5, C4Q0P6

SIGNOR signaling

0 interactions.

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 28 IntAct physical interaction partners (hypergeometric vs the genome-wide background, BH-FDR, gene-set size 15–500, ranked by fold). A functional readout of the neighbourhood — distinct from this gene’s own memberships above, and biased toward well-studied / hub proteins, so read it as themes rather than proof.

Reactome pathways:

PathwayPartnersFoldFDR
Neddylation613.5×4e-04
Antigen processing: Ubiquitination & Proteasome degradation610.6×9e-04

GO biological processes:

GO termPartnersFoldFDR
protein folding727.8×1e-06
proteasome-mediated ubiquitin-dependent protein catabolic process612.0×6e-04
protein ubiquitination711.2×3e-04

Disease & clinical

Clinical variants and AI predictions

ClinVar

20 variants total. Per-class counts are floors (≥ shown; pagination cap):

ClassificationCount (floor)
Pathogenic2
Likely pathogenic0
Uncertain significance11
Likely benign1
Benign2

Top pathogenic / likely-pathogenic (2)

Variant IDHGVSClassification
4819262NM_018639.5(WSB2):c.1121G>A (p.Arg374Gln)Pathogenic
4819263WSB2, 2-BP DEL, 1187AAPathogenic

SpliceAI

1137 predictions. Top by Δscore:

VariantEffectΔscore
12:118034984:AC:Adonor_gain1.0000
12:118034985:CC:Cdonor_gain1.0000
12:118035320:TGTGG:Tacceptor_gain1.0000
12:118035322:TGG:Tacceptor_gain1.0000
12:118035323:GG:Gacceptor_gain1.0000
12:118035325:C:CCacceptor_gain1.0000
12:118036331:T:TAdonor_gain1.0000
12:118036336:A:ACdonor_gain1.0000
12:118036337:C:CTdonor_gain1.0000
12:118036508:GACC:Gacceptor_loss1.0000
12:118036510:CCTG:Cacceptor_loss1.0000
12:118038280:AGACT:Adonor_loss1.0000
12:118038281:GACTC:Gdonor_loss1.0000
12:118038282:ACTC:Adonor_loss1.0000
12:118038283:CTCAC:Cdonor_loss1.0000
12:118038286:A:ACdonor_gain1.0000
12:118038286:ACC:Adonor_loss1.0000
12:118038287:C:CCdonor_gain1.0000
12:118038287:CCGA:Cdonor_gain1.0000
12:118038387:ACC:Aacceptor_loss1.0000
12:118038390:T:Cacceptor_loss1.0000
12:118038394:A:Tacceptor_gain1.0000
12:118042834:C:Adonor_gain1.0000
12:118052308:A:ACdonor_gain1.0000
12:118052309:C:CCdonor_gain1.0000
12:118052309:CAA:Cdonor_gain1.0000
12:118052479:C:CCacceptor_gain1.0000
12:118061031:CTCA:Cdonor_loss1.0000
12:118061032:TCACC:Tdonor_loss1.0000
12:118061033:CA:Cdonor_loss1.0000

AlphaMissense

2644 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
12:118034987:C:AG351W1.000
12:118034992:G:TA349D1.000
12:118036375:A:GW266R1.000
12:118036375:A:TW266R1.000
12:118042876:T:AD175V1.000
12:118042877:C:GD175H1.000
12:118042888:G:AS171F1.000
12:118042888:G:TS171Y1.000
12:118052367:G:TA42D1.000
12:118034335:A:GF359S0.999
12:118034986:C:TG351E0.999
12:118035080:A:GW320R0.999
12:118035080:A:TW320R0.999
12:118036373:C:AW266C0.999
12:118036373:C:GW266C0.999
12:118036404:G:CT256R0.999
12:118036404:G:TT256K0.999
12:118036410:A:GL254P0.999
12:118036410:A:TL254H0.999
12:118036501:A:GW224R0.999
12:118036501:A:TW224R0.999
12:118038353:A:GW199R0.999
12:118038353:A:TW199R0.999
12:118042859:A:GW181R0.999
12:118042859:A:TW181R0.999
12:118042864:C:GR179P0.999
12:118042867:A:GL178P0.999
12:118042876:T:GD175A0.999
12:118042883:A:GS173P0.999
12:118042889:A:GS171P0.999

dbSNP variants (sampled 300 via entrez): RS1000020880 (12:118062828 T>G), RS1000209611 (12:118042103 T>C), RS1000366007 (12:118060928 G>A), RS1000441297 (12:118048219 G>A,T), RS1000793519 (12:118057640 G>T), RS1000828457 (12:118040722 G>A), RS1000854068 (12:118035570 G>A,T), RS1000862260 (12:118058757 C>A,T), RS1000881442 (12:118052844 A>G), RS1000980272 (12:118059540 C>G), RS1001032612 (12:118034017 A>G), RS1001063098 (12:118033768 A>C), RS1001182249 (12:118047237 A>G), RS1001276497 (12:118047208 G>C,T), RS1001291494 (12:118041163 A>G)

Disease associations

OMIM: gene `` | disease phenotypes:

GenCC curated gene-disease

DiseaseClassificationInheritance
complex neurodevelopmental disorderLimitedAutosomal recessive

Mondo (1): complex neurodevelopmental disorder (MONDO:0100038)

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

2 associations (top):

StudyTraitp-value
GCST012015_5Chronic rhinosinusitis2.000000e-06
GCST90002403_460Red blood cell count4.000000e-10

EFO canonical traits (1, from GWAS)

EFO IDTrait name
EFO:0004305erythrocyte count

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 1 entry (VIP=true, CPIC=false)

CTD chemical–gene interactions

41 total (human), top 30 by PubMed support.

ChemicalActions (top 5)PubMed papers
Valproic Acidaffects expression, decreases expression, increases methylation3
lead acetateaffects cotreatment, decreases expression, increases expression2
sodium arsenitedecreases expression, increases abundance, increases expression2
methacrylaldehydeaffects cotreatment, increases oxidation, increases abundance2
Acroleinincreases abundance, affects cotreatment, increases oxidation2
Air Pollutantsaffects cotreatment, increases abundance, increases oxidation, decreases expression2
Ozoneaffects cotreatment, increases oxidation, increases abundance2
GSK-J4increases expression1
bisphenol Fincreases expression1
alpha-pineneaffects cotreatment, increases oxidation, increases abundance1
uranyl acetateaffects expression1
bisphenol Aincreases expression1
methylselenic aciddecreases expression1
zinc protoporphyrinaffects cotreatment, decreases expression1
di-n-butylphosphoric acidaffects expression1
perfluorooctane sulfonic aciddecreases expression1
CGP 52608affects binding, increases reaction1
bisphenol Saffects cotreatment, increases expression1
Temozolomidedecreases expression1
Arsenic Trioxidedecreases expression1
Acetaminophendecreases expression1
Arsenicdecreases expression, increases abundance1
Coumestroldecreases expression1
Dexamethasoneincreases expression, affects cotreatment1
Diazinondecreases methylation1
Diethylstilbestrolincreases expression1
Hydrogen Peroxideaffects expression1
Indomethacinaffects cotreatment, increases expression1
Leadaffects expression1
Tobacco Smoke Pollutionincreases expression1

Cellosaurus cell lines

1 cell lines: 1 cancer cell line

First 10 cell lines (id-ordered, not curated):

CellosaurusNameCategorySex
CVCL_B2LIAbcam HeLa WSB2 KOCancer cell lineFemale

Clinical trials (associated diseases)

2 trials via MONDO — disease-level, not drug-specific.

TrialPhaseStatusTitle
NCT06310681Not specifiedCOMPLETEDPilot Testing of a Co-adapted Group Programme for Parents/Carers of Children With Complex Neurodisability
NCT07303049Not specifiedNOT_YET_RECRUITINGCognitive Benefit of Intensive Rehabilitation Using Rhythmic Music Training in Children With Complex Neurodevelopmental Disorder