SH2D1B

gene
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Also known as EAT2

Summary

SH2D1B (SH2 domain containing 1B, HGNC:30416) is a protein-coding gene on chromosome 1q23.3, encoding SH2 domain-containing protein 1B (O14796). Cytoplasmic adapter regulating receptors of the signaling lymphocytic activation molecule (SLAM) family such as CD84, SLAMF1, LY9 and CD244.

By binding phosphotyrosines through its free SRC (MIM 190090) homology-2 (SH2) domain, EAT2 regulates signal transduction through receptors expressed on the surface of antigen-presenting cells (Morra et al., 2001 [PubMed 11689425]).

Source: NCBI Gene 117157 — RefSeq curated summary.

At a glance

  • GWAS associations: 3
  • Clinical variants (ClinVar): 20 total
  • MANE Select transcript: NM_053282

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:30416
Approved symbolSH2D1B
NameSH2 domain containing 1B
Location1q23.3
Locus typegene with protein product
StatusApproved
AliasesEAT2
Ensembl geneENSG00000198574
Ensembl biotypeprotein_coding
OMIM608510
Entrez117157

Gene structure

Transcript identifiers

Ensembl transcripts: 3 — 2 protein_coding, 1 retained_intron

ENST00000367929, ENST00000493550, ENST00000852031

RefSeq mRNA: 1 — MANE Select: NM_053282 NM_053282

CCDS: CCDS30928

Canonical transcript exons

ENST00000367929 — 4 exons

ExonStartEnd
ENSE00001201242162402739162402802
ENSE00001227609162398923162399087
ENSE00001425016162395268162397315
ENSE00001510901162411883162412136

Expression profiles

Bgee: expression breadth ubiquitous, 153 present calls, max score 93.14.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 1.3150 / max 482.1776, expressed in 160 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter IDTPM avgSamples expressed
156731.2370152
2017930.039813
156720.038218

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
granulocyteCL:000009493.14gold quality
gastrocnemiusUBERON:000138881.05gold quality
bloodUBERON:000017880.46gold quality
male germ line stem cell (sensu Vertebrata) in testisCL:0000089 ∩ UBERON:000047379.44gold quality
leukocyteCL:000073879.26gold quality
muscle of legUBERON:000138379.22gold quality
spermCL:000001978.43gold quality
hindlimb stylopod muscleUBERON:000425278.09gold quality
monocyteCL:000057677.95gold quality
amniotic fluidUBERON:000017377.45gold quality
deltoidUBERON:000147675.29gold quality
esophagus squamous epitheliumUBERON:000692074.62gold quality
spleenUBERON:000210673.60gold quality
buccal mucosa cellCL:000233672.70gold quality
primordial germ cell in gonadCL:0000670 ∩ UBERON:000099171.78gold quality
lower esophagus mucosaUBERON:003583470.58gold quality
skeletal muscle tissue of biceps brachiiUBERON:000450269.59silver quality
biceps brachiiUBERON:000150769.24silver quality
endothelial cellCL:000011568.95silver quality
skeletal muscle tissueUBERON:000113468.01gold quality
muscle tissueUBERON:000238565.50gold quality
vastus lateralisUBERON:000137964.31silver quality
colonic epitheliumUBERON:000039764.13silver quality
quadriceps femorisUBERON:000137763.79silver quality
bone marrow cellCL:000209262.85silver quality
bone marrowUBERON:000237162.61gold quality
upper lobe of left lungUBERON:000895261.27gold quality
right lungUBERON:000216761.22gold quality
epithelium of nasopharynxUBERON:000195161.11silver quality
lymph nodeUBERON:000002960.53gold quality

Single-cell (SCXA)

Detected in 4 experiment(s), a significant marker in 4.

ExperimentMarker?Max mean expression
E-GEOD-70580yes957.91
E-CURD-122yes51.93
E-MTAB-6678yes31.89
E-ANND-3yes25.06

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

109 targeting SH2D1B, 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-4425100.0067.591049
HSA-MIR-4795-3P100.0074.624024
HSA-MIR-3163100.0077.238605
HSA-MIR-548C-3P99.9974.017587
HSA-MIR-480399.9871.993117
HSA-MIR-3065-5P99.9771.563281
HSA-MIR-548AB99.9571.313488
HSA-MIR-55999.9572.283609
HSA-MIR-23A-3P99.9574.243163
HSA-MIR-23B-3P99.9574.243163
HSA-MIR-23C99.9573.923192
HSA-MIR-6845-3P99.9466.881439
HSA-MIR-548A-5P99.9471.273482
HSA-MIR-548AD-5P99.9471.233502
HSA-MIR-548AE-5P99.9471.233502
HSA-MIR-548AK99.9471.243488
HSA-MIR-548AM-5P99.9471.243488
HSA-MIR-548AP-5P99.9471.143489
HSA-MIR-548AQ-5P99.9471.343426
HSA-MIR-548AR-5P99.9471.283515
HSA-MIR-548AS-5P99.9471.223482
HSA-MIR-548AU-5P99.9471.243488
HSA-MIR-548AY-5P99.9471.233502
HSA-MIR-548B-5P99.9471.233502
HSA-MIR-548BB-5P99.9471.273509
HSA-MIR-548C-5P99.9471.243488
HSA-MIR-548D-5P99.9471.233502
HSA-MIR-548H-5P99.9471.243488
HSA-MIR-548I99.9471.253481
HSA-MIR-548J-5P99.9471.143489

Literature-anchored findings (GeneRIF, showing 4)

  • NTB-A-mediated IFN-gamma production was greatly reduced in the absence of SLAM-associated protein (SAP), demonstrating that cytokine production and cytotoxicity are differentially dependent on SAP and possibly EAT-2 (PMID:16920955)
  • Data indicate that Ewing’s sarcoma-associated transcript-2 (EAT-2) over-expression increased the anti-tumor activity of NK cells against K562 tumor cell. targets. (PMID:24374770)
  • EAT-2 mediates its effects in natural killer cells by linking SLAM family receptors to phospholipase Cgamma, calcium fluxes, and Erk kinase. (PMID:24687958)
  • When compared with SAP, the other single SH2 domain protein in human, EAT2 shows similar binding energies to unphosphorylated ligands. This is inconsistent to the previous data showing low affinity of EAT2 toward unphosphorylated peptides compared to SAP which shows high affinity (PMID:27586300)

Cross-species orthologs

10 orthologs

OrganismSymbolGene ID
danio_rerioinppl1bENSDARG00000001442
mus_musculusSh2d1b2ENSMUSG00000073494
mus_musculusSh2d1b1ENSMUSG00000102418
rattus_norvegicusSh2d1b2ENSRNOG00000069420
drosophila_melanogasterCG9784FBGN0030761
drosophila_melanogasterCG6805FBGN0034179
drosophila_melanogasterSynjFBGN0034691
drosophila_melanogastersp3FBGN0038890
caenorhabditis_elegansWBGENE00006763
caenorhabditis_eleganssac-2WBGENE00012353

Paralogs (13): SYNJ2 (ENSG00000078269), FIG4 (ENSG00000112367), OCRL (ENSG00000122126), INPP5K (ENSG00000132376), INPP5E (ENSG00000148384), SYNJ1 (ENSG00000159082), INPPL1 (ENSG00000165458), INPP5D (ENSG00000168918), SH2D1A (ENSG00000183918), INPP5J (ENSG00000185133), INPP5F (ENSG00000198825), INPP5B (ENSG00000204084), SACM1L (ENSG00000211456)

Protein

Protein identifiers

SH2 domain-containing protein 1BO14796 (reviewed: O14796)

Alternative names: EWS/FLI1-activated transcript 2

All UniProt accessions (1): O14796

UniProt curated annotations — full annotation on UniProt →

Function. Cytoplasmic adapter regulating receptors of the signaling lymphocytic activation molecule (SLAM) family such as CD84, SLAMF1, LY9 and CD244. In SLAM signaling seems to cooperate with SH2D1A/SAP. Plays a role in regulation of effector functions of natural killer (NK) cells by controlling signal transduction through CD244/2B4 without effecting its tyrosine phosphorylation; downstream signaling involves PLCG1 and ERK activation. Activation of SLAMF7-mediated NK cell function does not effect receptor tyrosine phosphorylation but distal signaling. In the context of NK cell-mediated cytotoxicity does not enhance conjugate formation with target cells but stimulates polarization of the microtubule-organizing center and cytotoxic granules toward the NK cell synapse. Negatively regulates CD40-induced cytokine production in dendritic cells downstream of SLAM family receptors probably by inducing activation of the PI3K pathway to inhibit p38 MAPK and JNK activation.

Subunit / interactions. Binds to the phosphorylated receptors CD84, SLAMF1, LY9 and CD244. Does not bind to non-phosphorylated SLAMF1. Interacts with SLAMF7 (via ITSM phosphorylated on ‘Tyr-304’). Interacts with Src kinases HCK, LYN, FYN, FGR and LCK (via kinase domains). Interacts (phosphorylated at Tyr-127) with PLCG1.

Isoforms (2)

UniProt IDNamesCanonical?
O14796-11yes
O14796-22

RefSeq proteins (1): NP_444512* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR000980SH2Domain
IPR035049EAT2_SH2Domain
IPR036860SH2_dom_sfHomologous_superfamily

Pfam: PF00017

UniProt features (16 total): strand 7, helix 2, sequence variant 2, chain 1, domain 1, modified residue 1, splice variant 1, mutagenesis site 1

Structure

Experimental structures (PDB)

1 structures.

PDBMethodResolution (Å)
5KAZX-RAY DIFFRACTION1.7

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-O14796-F180.440.61

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Post-translational modifications (1): 127

Mutagenesis-validated functional residues (1):

PositionPhenotype
127no stimulation of granule polarization during nk-mediated cytotoxicity, abolishes activation of cd244/2b4-mediated cytot

Function

Pathways and Gene Ontology

Reactome pathways

3 pathways

IDPathway
R-HSA-198933Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell
R-HSA-1280218Adaptive Immune System
R-HSA-168256Immune System

MSigDB gene sets: 117 (showing top): GSE18804_BRAIN_VS_COLON_TUMORAL_MACROPHAGE_DN, REACTOME_ADAPTIVE_IMMUNE_SYSTEM, GOBP_LEUKOCYTE_MEDIATED_IMMUNITY, GOBP_CELL_ACTIVATION_INVOLVED_IN_IMMUNE_RESPONSE, GOBP_POSITIVE_REGULATION_OF_RESPONSE_TO_EXTERNAL_STIMULUS, GOBP_REGULATION_OF_IMMUNE_RESPONSE, GOBP_DEFENSE_RESPONSE_TO_OTHER_ORGANISM, GOBP_LYMPHOCYTE_MEDIATED_IMMUNITY, ROZANOV_MMP14_TARGETS_UP, GOBP_REGULATION_OF_RESPONSE_TO_STRESS, GOBP_REGULATION_OF_LYMPHOCYTE_MEDIATED_IMMUNITY, TGANTCA_AP1_C, GOBP_ADAPTIVE_IMMUNE_RESPONSE, GOBP_NATURAL_KILLER_CELL_MEDIATED_IMMUNITY, GOBP_POSITIVE_REGULATION_OF_RESPONSE_TO_BIOTIC_STIMULUS

GO Biological Process (6): adaptive immune response (GO:0002250), leukocyte activation involved in immune response (GO:0002366), positive regulation of natural killer cell mediated immunity (GO:0002717), innate immune response (GO:0045087), positive regulation of innate immune response (GO:0045089), immune system process (GO:0002376)

GO Molecular Function (2): protein-macromolecule adaptor activity (GO:0030674), protein binding (GO:0005515)

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

Reactome top-level categories

Rollup of top-2 pathways:

CategoryPathways
Adaptive Immune System1
Immune System1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
immune response3
cell activation involved in immune response1
leukocyte activation1
natural killer cell mediated immunity1
positive regulation of lymphocyte mediated immunity1
regulation of natural killer cell mediated immunity1
positive regulation of innate immune response1
defense response to symbiont1
positive regulation of response to biotic stimulus1
positive regulation of defense response1
positive regulation of response to external stimulus1
innate immune response1
regulation of innate immune response1
positive regulation of immune response1
biological_process1
protein binding1
molecular adaptor activity1
binding1
cytoplasm1
cellular anatomical structure1

Protein interactions and networks

STRING

734 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
SH2D1BLY9Q9HBG7937
SH2D1BCD84Q9UIB8936
SH2D1BCD244Q9BZW8864
SH2D1BSLAMF1Q13291824
SH2D1BSLAMF6Q96DU3813
SH2D1BSLAMF7Q9NQ25783
SH2D1BEIF4A1P04765777
SH2D1BPTPN11Q06124760
SH2D1BCD2P06729755
SH2D1BEWSR1Q01844682
SH2D1BEIF4A2Q14240662
SH2D1BFYNP06241612
SH2D1BKLRC2P26717603
SH2D1BCD48P09326543
SH2D1BSLAMF9Q96A28541

IntAct

99 interactions, top by confidence:

ABTypeScore
TRIM54SH2D1Bpsi-mi:“MI:0915”(physical association)0.720
SH2D1BTRIM54psi-mi:“MI:0915”(physical association)0.720
SH2D1BCD244psi-mi:“MI:0407”(direct interaction)0.690
CD244SH2D1Bpsi-mi:“MI:0914”(association)0.690
SH2D1BCD244psi-mi:“MI:0915”(physical association)0.690
SLAMF6SH2D1Bpsi-mi:“MI:0914”(association)0.620
SH2D1BSLAMF6psi-mi:“MI:0915”(physical association)0.620
SH2D1Bpsi-mi:“MI:0915”(physical association)0.570
SH2D1Bpsi-mi:“MI:0915”(physical association)0.570
SH2D1BTCF12psi-mi:“MI:0915”(physical association)0.560
SH2D1BDDIT4Lpsi-mi:“MI:0915”(physical association)0.560
BLKSH2D1Bpsi-mi:“MI:0915”(physical association)0.560
SH2D1BAGR2psi-mi:“MI:0915”(physical association)0.560
SH2D1Bpsi-mi:“MI:0915”(physical association)0.560
SH2D1BMEOX2psi-mi:“MI:0915”(physical association)0.560
SH2D1BTNK2psi-mi:“MI:0915”(physical association)0.560
SH2D1BBLKpsi-mi:“MI:0915”(physical association)0.560

BioGRID (35): SH2D1B (Two-hybrid), HSPA1A (Two-hybrid), STAT4 (Two-hybrid), SH2D1B (Two-hybrid), OLIG1 (Two-hybrid), PTK2 (Two-hybrid), HSPA1A (Affinity Capture-Luminescence), OLIG1 (Affinity Capture-Luminescence), SH2D1B (Two-hybrid), SH2D1B (Two-hybrid), SH2D1B (Two-hybrid), SH2D1B (Two-hybrid), SH2D1B (Two-hybrid), SH2D1B (Two-hybrid), SH2D1B (Two-hybrid)

ESM2 similar proteins: B2RZ59, O12990, O14543, O14796, O35324, O35718, O60880, O88583, O88890, O88900, P05433, P08487, P0CE43, P10686, P19174, P43403, P43404, P43405, P46108, P46109, P47941, P81718, P87378, P97504, Q00655, Q04929, Q06AA1, Q09178, Q14449, Q22070, Q2I6J0, Q3ZBB1, Q45HK4, Q5ICW4, Q5U2U2, Q60760, Q62077, Q62120, Q62689, Q63768

Diamond homologs: A0A8I3NFE2, A0FI79, A0JNB0, A1Y2K1, A6QLK6, B2RZ59, B5KFD7, D3ZGS3, D7PF45, F1RDG9, G5ECJ6, O14306, O14796, O15357, O35324, O60880, O88890, O88900, P00519, P00520, P00521, P00522, P03949, P06239, P06241, P09851, P0CE43, P10447, P17713, P20936, P29350, P29351, P32019, P34370, P39688, P42684, P42685, P42686, P50904, P53356

SIGNOR signaling

0 interactions.

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 32 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
Constitutive Signaling by Aberrant PI3K in Cancer634.6×4e-06
PI5P, PP2A and IER3 Regulate PI3K/AKT Signaling626.4×1e-05
PIP3 activates AKT signaling618.2×5e-05
RAF/MAP kinase cascade616.7×6e-05
Signaling by Receptor Tyrosine Kinases511.7×8e-04

GO biological processes:

GO termPartnersFoldFDR
epidermal growth factor receptor signaling pathway646.5×1e-06
adaptive immune response513.2×3e-03
immune response68.8×3e-03
intracellular signal transduction67.2×6e-03

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic0
Likely pathogenic0
Uncertain significance17
Likely benign0
Benign0

Top pathogenic / likely-pathogenic (0)

SpliceAI

573 predictions. Top by Δscore:

VariantEffectΔscore
1:162411881:A:ACdonor_gain1.0000
1:162411882:C:CCdonor_gain1.0000
1:162411882:CGAGA:Cdonor_gain1.0000
1:162411952:T:TAdonor_gain1.0000
1:162397311:CTGTT:Cacceptor_gain0.9900
1:162402800:AACCT:Aacceptor_loss0.9900
1:162402801:ACCTG:Aacceptor_loss0.9900
1:162402804:T:Gacceptor_loss0.9900
1:162402805:G:Cacceptor_loss0.9900
1:162411877:ACTCA:Adonor_loss0.9900
1:162411878:CTCA:Cdonor_loss0.9900
1:162411879:T:TGdonor_loss0.9900
1:162411880:CAC:Cdonor_loss0.9900
1:162411881:ACGAG:Adonor_loss0.9900
1:162411882:CG:Cdonor_gain0.9900
1:162411882:CGAG:Cdonor_gain0.9900
1:162397318:T:Cacceptor_gain0.9800
1:162398922:C:CTdonor_gain0.9800
1:162411882:CGA:Cdonor_gain0.9800
1:162398955:T:Adonor_gain0.9700
1:162399003:C:CTdonor_gain0.9700
1:162402733:TCTTA:Tdonor_loss0.9700
1:162402734:CTTA:Cdonor_loss0.9700
1:162402735:TTAC:Tdonor_loss0.9700
1:162402736:TACC:Tdonor_loss0.9700
1:162402737:A:Cdonor_loss0.9700
1:162402738:C:CTdonor_loss0.9700
1:162411973:CAGT:Cdonor_gain0.9700
1:162397316:C:CCacceptor_gain0.9600
1:162398896:TTCTG:Tdonor_gain0.9600

AlphaMissense

860 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
1:162411924:T:AR31S0.989
1:162411924:T:GR31S0.989
1:162411933:A:CF28L0.988
1:162411933:A:TF28L0.988
1:162411935:A:GF28L0.988
1:162411931:A:GL29P0.984
1:162411918:G:CS33R0.983
1:162411918:G:TS33R0.983
1:162411920:T:GS33R0.983
1:162411940:C:TG26D0.983
1:162411940:C:AG26V0.982
1:162399041:A:GL82P0.980
1:162411925:C:GR31T0.980
1:162402788:A:TV50D0.978
1:162411892:A:GL42P0.978
1:162411894:G:CC41W0.978
1:162411925:C:AR31I0.977
1:162411886:A:TV44D0.976
1:162411890:A:GC43R0.975
1:162399058:A:CF76L0.974
1:162399058:A:TF76L0.974
1:162399060:A:GF76L0.974
1:162411896:A:GC41R0.974
1:162411928:A:GL30S0.973
1:162411888:A:CC43W0.970
1:162402776:C:GR54P0.969
1:162411931:A:TL29H0.969
1:162411972:A:CC15W0.969
1:162402773:A:GI55T0.967
1:162402773:A:CI55S0.966

dbSNP variants (sampled 300 via entrez): RS1000210350 (1:162405214 A>C,G), RS1000229443 (1:162408937 A>G), RS1000231526 (1:162402539 A>C,G), RS1000384990 (1:162398932 T>A,C), RS1000645036 (1:162397153 T>C), RS1000716869 (1:162397564 C>A,T), RS1000948032 (1:162403660 T>C), RS1000949588 (1:162407338 C>G), RS1000980586 (1:162410040 G>T), RS1001013030 (1:162409713 G>A), RS1001831173 (1:162402061 G>A,C,T), RS1002216423 (1:162402357 A>C), RS1002317549 (1:162395237 T>G), RS1002390978 (1:162395706 A>G), RS1002611658 (1:162402466 C>A,G,T)

Disease associations

OMIM: gene MIM:608510 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

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

GWAS associations

3 associations (top):

StudyTraitp-value
GCST006575_29Takayasu arteritis2.000000e-07
GCST010538_3Sum of carotid plaque area5.000000e-06
GCST010539_2Sum of stenosis4.000000e-07

EFO canonical traits (1, from GWAS)

EFO IDTrait name
EFO:0006501carotid plaque build

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

15 total (human), top 15 by PubMed support.

ChemicalActions (top 5)PubMed papers
triphenyl phosphateaffects expression1
butyraldehydeincreases expression1
di-n-butylphosphoric acidaffects expression1
CGP 52608affects binding, increases reaction1
(+)-JQ1 compounddecreases expression1
Zoledronic Acidincreases expression1
Air Pollutants, Occupationaldecreases expression1
Arsenicaffects expression1
Benzo(a)pyreneaffects methylation, increases methylation1
Estradiolaffects cotreatment, decreases expression1
Nickeldecreases expression1
Progesteroneaffects cotreatment, decreases expression1
Tobacco Smoke Pollutionincreases expression1
Aflatoxin B1increases methylation1
Okadaic Acidincreases expression1

Clinical trials (associated diseases)

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

  • Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): Takayasu arteritis