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SH2D1B Gene

protein-coding   GIFtS: 56
GCID: GC01M162366

SH2 Domain Containing 1B

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(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
SH2 Domain Containing 1B1 2
EAT22 3 5
EAT-22 3
EWS/FLI1-Activated Transcript 22 3
SH2 Domain-Containing Molecule EAT22
SH2 Domain-Containing Protein 1B2

External Ids:    HGNC: 304161   Entrez Gene: 1171572   Ensembl: ENSG000001985747   OMIM: 6085105   UniProtKB: O147963   
ORGUL members:         

Export aliases for SH2D1B gene to outside databases

Previous GC identifers: GC01M159097 GC01M160631 GC01M133609


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for SH2D1B Gene:
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)).(supplied by OMIM, Mar 2008)

GeneCards Summary for SH2D1B Gene:
SH2D1B (SH2 domain containing 1B) is a protein-coding gene. GO annotations related to this gene include SH3/SH2 adaptor activity and protein binding, bridging. An important paralog of this gene is SH2D1A.

UniProtKB/Swiss-Prot: SH21B_HUMAN, O14796
Function: Plays a role in controlling signal transduction through at least four receptors, CD84, SLAMF1, LY9 and
CD244, expressed on the surface of professional antigen-presenting cells

Gene Wiki entry for SH2D1B Gene


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000001.10  NC_018912.2  NT_004487.20  
Regulatory elements:
   Regulatory transcription factor binding sites in the SH2D1B gene promoter:
         AhR   NF-1   ISGF-3   HSF2   Arnt   Evi-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSH2D1B promoter sequence
   Search Chromatin IP Primers for SH2D1B

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SH2D1B


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 1q23.3   Ensembl cytogenetic band:  1q23.3   HGNC cytogenetic band: 1q23.3

SH2D1B Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SH2D1B gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01M162366:  view genomic region     (about GC identifiers)

Start:
162,365,056 bp from pter      End:
162,381,928 bp from pter
Size:
16,873 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: SH21B_HUMAN, O14796 (See protein sequence)
Recommended Name: SH2 domain-containing protein 1B  
Size: 132 amino acids; 15297 Da
Subunit: Binds to the phosphorylated receptors CD84, SLAMF1, LY9 and CD244. Does not bind to non-phosphorylated
SLAMF1
Secondary accessions: B2RBN6 Q5T0L1 Q8NI18 Q969K9
Alternative splicing: 2 isoforms:  O14796-1   O14796-2   

Explore the universe of human proteins at neXtProt for SH2D1B: NX_O14796

Explore proteomics data for SH2D1B at MOPED


See SH2D1B Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_444512.2  
ENSEMBL proteins: 
 ENSP00000356906   ENSP00000352571  

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antibodies-online proteins for SH2D1B (6 products) 

 
antibodies-online peptides for SH2D1B

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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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HGNC Gene Families:
SH2D: SH2 domain containing

1 InterPro protein domain:
 IPR000980 SH2

Graphical View of Domain Structure for InterPro Entry O14796

ProtoNet protein and cluster: O14796

1 Blocks protein domain: IPB000980 SH2 domain signature

UniProtKB/Swiss-Prot: SH21B_HUMAN, O14796
Similarity: Contains 1 SH2 domain


Find genes that share domains with SH2D1B           About GenesLikeMe


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Molecular Function:

     UniProtKB/Swiss-Prot Summary: SH21B_HUMAN, O14796
Function: Plays a role in controlling signal transduction through at least four receptors, CD84, SLAMF1, LY9 and
CD244, expressed on the surface of professional antigen-presenting cells

     Gene Ontology (GO): 2 molecular function terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005515protein binding IPI12928397
GO:0030674protein binding, bridging TAS16425036
     
Find genes that share ontologies with SH2D1B           About GenesLikeMe


Phenotypes:
     2 MGI mutant phenotypes (inferred from 5 alleles(MGI details for Sh2d1b1):
 hematopoietic system  immune system 

Find genes that share phenotypes with SH2D1B           About GenesLikeMe

Animal Models:
     MGI mouse knock-outs for SH2D1B: Sh2d1b1tm1.1Cpt Sh2d1b1tm3Vei Sh2d1b1tm1Vei Sh2d1b1tm2Vei Sh2d1b1/Sh2d1b2Sh2d1b1/tm1.1Cpt

   genOway: Develop your customized and physiologically relevant rodent model for SH2D1B

miRNA
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miRTarBase miRNAs that target SH2D1B:
hsa-mir-124-3p (MIRT022866)

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7 qRT-PCR Assays for microRNAs that regulate SH2D1B:
hsa-miR-22 hsa-miR-935 hsa-miR-298 hsa-miR-138 hsa-miR-3065-5p hsa-miR-510 hsa-miR-219-2-3p
SwitchGear 3'UTR luciferase reporter plasmidSH2D1B 3' UTR sequence
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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Subcellular locations from COMPARTMENTS: 

CompartmentConfidence
cytosol3
nucleus2
mitochondrion1

Gene Ontology (GO): 1 cellular component term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005622intracellular IDA16920955

Find genes that share ontologies with SH2D1B           About GenesLikeMe


(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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SuperPaths for SH2D1B About    
See pathways by source

SuperPathContained pathways About
1Immune response Role of DAP12 receptors in NK cells
Natural killer cell mediated cytotoxicity0.31


Find genes that share SuperPaths with SH2D1B           About GenesLikeMe

Pathways by source                                                                                                                                                                 See SuperPaths
Show all pathways




1 Kegg Pathway  (Kegg details for SH2D1B):
    Natural killer cell mediated cytotoxicity

    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for SH2D1B
Interactions:

    GeneGlobe Interaction Network for SH2D1B

STRING Interaction Network Preview (showing 5 interactants - click image to see 10)

Selected Interacting proteins for SH2D1B (O147961, 2, 3 ENSP000003569064) via UniProtKB, MINT, STRING, and/or I2D (see all 10)
InteractantInteraction Details
GeneCardExternal ID(s)
ERBB2P046262, 3, ENSP000002695714MINT-74529 I2D: score=2 STRING: ENSP00000269571
CD84Q9UIB81, 2, 3, ENSP000003570334EBI-3923013,EBI-6691679 MINT-8026176 MINT-8028807 I2D: score=3 STRING: ENSP00000357033
SLAMF1Q132912, 3, ENSP000003061904MINT-8031683 I2D: score=4 STRING: ENSP00000306190
LY9Q9HBG73, ENSP000003570204I2D: score=1 STRING: ENSP00000357020
CD244Q9BZW83, ENSP000003570134I2D: score=1 STRING: ENSP00000357013
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Gene Ontology (GO): 3 biological process terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0002366leukocyte activation involved in immune response ISS--
GO:0002717positive regulation of natural killer cell mediated immunity ISS--
GO:0045089positive regulation of innate immune response ISS--

Find genes that share ontologies with SH2D1B           About GenesLikeMe



(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Browse Small Molecules at EMD Millipore
   Browse drugs & compounds from Enzo Life Sciences
  Browse compounds at ApexBio 

Browse Tocris compounds for SH2D1B (SH21B)

1 Novoseek inferred chemical compound relationship for SH2D1B gene    About this table
Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
tyrosine 25.1 3 11689425 (1), 16425036 (1)



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(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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REFSEQ mRNAs for SH2D1B gene: 
NM_053282.4  

Unigene Cluster for SH2D1B:

SH2 domain containing 1B
Hs.350581  [show with all ESTs]
Unigene Representative Sequence: NM_053282
3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000367929(uc001gbz.1 uc001gca.1) ENST00000493550 ENST00000359567

miRNA
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7 qRT-PCR Assays for microRNAs that regulate SH2D1B:
hsa-miR-22 hsa-miR-935 hsa-miR-298 hsa-miR-138 hsa-miR-3065-5p hsa-miR-510 hsa-miR-219-2-3p
SwitchGear 3'UTR luciferase reporter plasmidSH2D1B 3' UTR sequence
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  QuantiFast Probe-based Assays in human, mouse, rat SH2D1B

Additional mRNA sequence: 

AF256653.1 AF403479.1 AF484964.1 AK097162.1 AK314743.1 BC022407.1 BC066595.1 

3 DOTS entries:

DT.91807987  DT.97835481  DT.97764427 

22 AceView cDNA sequences:

AF403479 BC066595 BM922409 BF375549 BC022407 CD521440 AF484964 AF256653 
NM_053282 CD641560 AW613569 AL709120 AK097162 CD521821 BE896279 CD639168 
BG569733 CD639517 CD707235 AA318738 BI912061 CD703272 

GeneLoc Exon Structure

4 Alternative Splicing Database (ASD) splice patterns (SP) for SH2D1B    About this scheme

ExUns: 1a · 1b ^ 2 ^ 3a · 3b ^ 4 ^ 5a · 5b
SP1:              -           -                     
SP2:                          -                     
SP3:              -           -     -               
SP4:              -                                 


ECgene alternative splicing isoforms for SH2D1B

(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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SH2D1B expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: GAGTCATAAA
SH2D1B Expression
About this image


SH2D1B expression in embryonic tissues and stem cells    About this table
Data from LifeMap, the Embryonic Development and Stem Cells Database
 
 Blood (Hematopoietic System)
         Natural Killer Cells Peripheral Blood
SH2D1B Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

SH2D1B Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.350581
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In Situ
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(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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This gene was present in the common ancestor of chordates.

Orthologs for SH2D1B gene from Selected species (see all 10)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Sh2d1b11 , 5 SH2 domain protein 1B11, 5 80.05(n)1
65.15(a)1
  1 (76.84 cM)5
269041  NM_012009.41  NP_036139.31 
 1702773765 
chicken
(Gallus gallus)
Aves SH2D1B1 SH2 domain containing 1B 60.31(n)
49.62(a)
  418411  NM_001278073.1  NP_001265002.1 
lizard
(Anolis carolinensis)
Reptilia SH2D1B6
SH2 domain containing 1B
36(a)
1 ↔ 1
3(169133512-169142444)
tropical clawed frog
(Xenopus tropicalis)
Amphibia LOC1004869291 SH2 domain-containing protein 1B-like 59.26(n)
53.17(a)
  100486929  XM_002932285.1  XP_002932331.1 
zebrafish
(Danio rerio)
Actinopterygii si:dkey-11p10.101 si:dkey-11p10.10 51.77(n)
43.94(a)
  100000923  NM_001202492.1  NP_001189421.1 


ENSEMBL Gene Tree for SH2D1B (if available)
TreeFam Gene Tree for SH2D1B (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for SH2D1B gene
SH2D1A2  
4 SIMAP similar genes for SH2D1B using alignment to 1 protein entry:     SH21B_HUMAN:
SH2D1A    INPPL1    INPP5D    LCK

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1 Pseudogenes.org Pseudogene for SH2D1B
PGOHUM00000244315


(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for SH2D1B (see all 448)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 1 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1918527711,2
C--162364567(+) AGGGTC/TTCACT 1 -- int10--------
rs1836675231,2
--162364601(+) TGACAC/TGATCT 1 -- int10--------
rs1390482181,2
--162364632(+) CTCCCA/GGGTTC 1 -- int10--------
rs1894974691,2
--162364737(+) TTTCAC/TCATGT 1 -- int10--------
rs1819315801,2
--162364857(+) CTTTAA/CCTGAA 1 -- int10--------
rs1856828331,2
--162364992(+) AAATAC/TTAACT 1 -- int10--------
rs1905579721,2
--162365039(+) TTATCA/CAGTGA 1 -- int10--------
rs1426764721,2
--162365219(+) TACAAA/CAAACA 1 -- ut310--------
rs1814970641,2
--162365300(+) CATGAA/CTATGA 1 -- ut310--------
rs780410901,2
C,F--162365426(+) TTTACA/GTAGAA 1 -- ut311Minor allele frequency- G:0.13WA 118

HapMap Linkage Disequilibrium report for SH2D1B (162365056 - 162381928 bp)

Structural Variations
     Database of Genomic Variants (DGV) 4 variations for SH2D1B:    About this table    
Variant IDTypeSubtypePubMed ID
dgv399n71CNV Gain21882294
esv34209CNV Gain17911159
nsv516482CNV Gain+Loss19592680
dgv141e1CNV Complex17122850

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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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OMIM gene information: 608510    OMIM disorders: --


Find genes that share disorders with SH2D1B           About GenesLikeMe


Export disorders for SH2D1B gene to outside databases

(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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PubMed articles for SH2D1B gene, integrated from 10 sources (see all 18):
(articles sorted by number of sources associating them with SH2D1B)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Structural basis for the interaction of the free SH2 domain EAT-2 with SLAM receptors in hematopoietic cells. (PubMed id 11689425)1, 2, 3, 9 Morra M.... Terhorst C. (EMBO J. 2001)
  2. EAT-2 is a novel SH2 domain containing protein that is up regulated by Ewing's sarcoma EWS/FLI1 fusion gene. (PubMed id 9000139)1, 2, 3 Thompson A.D.... Denny C. (Oncogene 1996)
  3. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)1, 2 Gregory S.G.... Bentley D.R. (Nature 2006)
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S.... Malek J. (Genome Res. 2004)
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
  6. CD84 is up-regulated on a major population of human memory B cells and recruits the SH2 domain containing proteins SAP and EAT-2. (PubMed id 12115647)1, 2 Tangye S.G.... Hodgkin P.D. (Eur. J. Immunol. 2002)
  7. Identification and characterization of two related murine genes, Eat2a and Eat2b, encoding single SH2-domain adapters. (PubMed id 16425036)1, 9 Calpe S....Lanyi A. (Immunogenetics 2006)
  8. SRC Homology 2 Domain Binding Sites in Insulin, IGF-1 and FGF receptor mediated signaling networks reveal an extensive potential interactome. (PubMed id 22974441)1 Liu B.A....Nash P.D. (Cell Commun. Signal 2012)
  9. Toward an understanding of the protein interaction network of the human liver. (PubMed id 21988832)1 Wang J....Yang X. (Mol. Syst. Biol. 2011)
  10. Interactions of pathological hallmark proteins: tubulin polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. (PubMed id 21832049)1 OlA!h J....OvA!di J. (J. Biol. Chem. 2011)

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(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 117157 HGNC: 30416 AceView: EAT2 Ensembl:ENSG00000198574 euGenes: HUgn117157
ECgene: SH2D1B Kegg: 117157 H-InvDB: SH2D1B

(According to HUGE)
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(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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NameDescription
PharmGKB entry for SH2D1B Pharmacogenomics, SNPs, Pathways
ATLAS Chromosomes in Cancer entry for SH2D1B Genetics and Cytogenetics in Oncology and Haematology

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Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for SH2D1B gene:
Search GeneIP for patents involving SH2D1B

GeneCards and IP:
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