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    EPHB2 EPH receptor B2 [ Homo sapiens (human) ]

    Gene ID: 2048, updated on 4-Jan-2025

    Summary

    Official Symbol
    EPHB2provided by HGNC
    Official Full Name
    EPH receptor B2provided by HGNC
    Primary source
    HGNC:HGNC:3393
    See related
    Ensembl:ENSG00000133216 MIM:600997; AllianceGenome:HGNC:3393
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    DRT; EK5; ERK; CAPB; Hek5; PCBC; EPHT3; Tyro5; BDPLT22
    Summary
    This gene encodes a member of the Eph receptor family of receptor tyrosine kinase transmembrane glycoproteins. These receptors are composed of an N-terminal glycosylated ligand-binding domain, a transmembrane region and an intracellular kinase domain. They bind ligands called ephrins and are involved in diverse cellular processes including motility, division, and differentiation. A distinguishing characteristic of Eph-ephrin signaling is that both receptors and ligands are competent to transduce a signaling cascade, resulting in bidirectional signaling. This protein belongs to a subgroup of the Eph receptors called EphB. Proteins of this subgroup are distinguished from other members of the family by sequence homology and preferential binding affinity for membrane-bound ephrin-B ligands. Allelic variants are associated with prostate and brain cancer susceptibility. Alternative splicing results in multiple transcript variants. [provided by RefSeq, May 2015]
    Expression
    Broad expression in colon (RPKM 7.3), small intestine (RPKM 5.2) and 17 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See EPHB2 in Genome Data Viewer
    Location:
    1p36.12
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (22710838..22921500)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (22535722..22747006)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (23037331..23247993)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:23003627-23004149 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:23004182-23004720 Neighboring gene complement C1q C chain Neighboring gene complement C1q B chain Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:23021074-23021574 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:23021575-23022075 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:23036019-23036304 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 353 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:23043657-23044346 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:23049783-23050297 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:23063222-23063783 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:23066264-23066434 Neighboring gene microRNA 4684 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 354 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 355 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:23082861-23083022 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:23117273-23117773 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:23118959-23119488 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:23136274-23136774 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:23136775-23137275 Neighboring gene Sharpr-MPRA regulatory region 697 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:23154258-23154779 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:23163087-23164034 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:23176387-23176888 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:23176889-23177388 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:23179771-23180334 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:23180335-23180896 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 403 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:23191518-23191863 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:23203195-23203794 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:23206043-23206947 Neighboring gene uncharacterized LOC124903874 Neighboring gene microRNA 4253 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:23216005-23216210 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:23251233-23251733 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:23256871-23257055 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:23287810-23287985 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:23290925-23291425 Neighboring gene lactamase beta like 1 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:23336854-23338053 Neighboring gene testis expressed 46

    Genomic regions, transcripts, and products

    Expression

    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Envelope transmembrane glycoprotein gp41 env A synthetic peptide corresponding to the immunosuppressive domain (amino acids 574-592) of HIV-1 gp41 downregulates the expression of EPH receptor B2 (EPHB2) in peptide-treated PBMCs PubMed
    Nef nef HIV-1 Nef rapidly terminates ERK activation in the presence of TPA in a macrophage-inducing system PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    General gene information

    Clone Names

    • MGC87492

    Gene Ontology Provided by GOA

    Items 1 - 25 of 30
    Function Evidence Code Pubs
    enables ATP binding  
    enables GPI-linked ephrin receptor activity  
    enables amyloid-beta binding  
    enables amyloid-beta binding PubMed 
    enables axon guidance receptor activity  
    enables boss receptor activity  
    enables brain-derived neurotrophic factor receptor activity  
    enables epidermal growth factor receptor activity  
    enables fibroblast growth factor receptor activity  
    enables hepatocyte growth factor receptor activity  
    enables histone H2AXY142 kinase activity  
    enables histone H3Y41 kinase activity  
    enables identical protein binding  
    enables insulin receptor activity  
    enables insulin-like growth factor receptor activity  
    enables macrophage colony-stimulating factor receptor activity  
    enables placental growth factor receptor activity  
    enables platelet-derived growth factor alpha-receptor activity  
    enables platelet-derived growth factor beta-receptor activity  
    enables protein binding PubMed 
    enables protein binding PubMed 
    enables protein tyrosine kinase activity  
    enables protein tyrosine kinase collagen receptor activity  
    enables protein-containing complex binding  
    enables signaling receptor binding  
    enables stem cell factor receptor activity  
    enables transmembrane-ephrin receptor activity  
    enables transmembrane-ephrin receptor activity  
    enables transmembrane-ephrin receptor activity PubMed 
    enables vascular endothelial growth factor receptor activity  
    Items 1 - 25 of 30
    Items 1 - 25 of 73
    Process Evidence Code Pubs
    involved_in B cell activation PubMed 
    involved_in Kit signaling pathway  
    involved_in angiogenesis  
    involved_in axon guidance  
    involved_in axon guidance  
    involved_in axonal fasciculation  
    involved_in brain-derived neurotrophic factor receptor signaling pathway  
    involved_in camera-type eye morphogenesis  
    involved_in cellular response to amyloid-beta  
    involved_in cellular response to lipopolysaccharide  
    involved_in central nervous system projection neuron axonogenesis  
    involved_in chromatin remodeling  
    involved_in collagen-activated tyrosine kinase receptor signaling pathway  
    involved_in commissural neuron axon guidance  
    involved_in corpus callosum development  
    involved_in dendritic spine development  
    involved_in dendritic spine morphogenesis  
    involved_in ephrin receptor signaling pathway  
    involved_in ephrin receptor signaling pathway  
    involved_in epidermal growth factor receptor signaling pathway  
    involved_in fibroblast growth factor receptor signaling pathway  
    involved_in hepatocyte growth factor receptor signaling pathway  
    involved_in hindbrain tangential cell migration  
    involved_in inner ear morphogenesis  
    involved_in insulin receptor signaling pathway  
    involved_in insulin-like growth factor receptor signaling pathway  
    involved_in learning  
    involved_in learning or memory  
    involved_in macrophage colony-stimulating factor signaling pathway  
    involved_in negative regulation of ERK1 and ERK2 cascade  
    involved_in negative regulation of NMDA glutamate receptor activity  
    involved_in negative regulation of Ras protein signal transduction  
    involved_in negative regulation of axonogenesis  
    involved_in negative regulation of cell adhesion PubMed 
    involved_in negative regulation of cytokine production involved in inflammatory response  
    acts_upstream_of negative regulation of protein kinase activity  
    involved_in negative regulation of protein phosphorylation  
    involved_in nervous system development PubMed 
    involved_in neuron projection retraction  
    involved_in optic nerve morphogenesis  
    involved_in peptidyl-tyrosine phosphorylation  
    involved_in phosphorylation  
    involved_in platelet-derived growth factor receptor-alpha signaling pathway  
    involved_in platelet-derived growth factor receptor-beta signaling pathway  
    involved_in positive regulation of B cell proliferation PubMed 
    involved_in positive regulation of NMDA glutamate receptor activity  
    involved_in positive regulation of cell migration PubMed 
    involved_in positive regulation of dendritic spine morphogenesis  
    involved_in positive regulation of gene expression  
    involved_in positive regulation of immunoglobulin production PubMed 
    involved_in positive regulation of long-term neuronal synaptic plasticity  
    involved_in positive regulation of long-term synaptic potentiation  
    involved_in positive regulation of protein localization to cell surface  
    involved_in positive regulation of protein localization to plasma membrane  
    involved_in positive regulation of synapse assembly  
    involved_in positive regulation of synaptic plasticity  
    involved_in positive regulation of tumor necrosis factor production PubMed 
    involved_in postsynaptic membrane assembly  
    involved_in regulation of T-helper 17 type immune response  
    acts_upstream_of_positive_effect regulation of autophagosome assembly PubMed 
    involved_in regulation of behavioral fear response  
    involved_in regulation of blood coagulation PubMed 
    involved_in regulation of body fluid levels  
    involved_in regulation of filopodium assembly  
    involved_in regulation of neuronal synaptic plasticity  
    involved_in regulation of receptor signaling pathway via JAK-STAT  
    involved_in retinal ganglion cell axon guidance  
    involved_in roof of mouth development  
    involved_in tight junction assembly  
    involved_in urogenital system development  
    involved_in vascular endothelial growth factor receptor-1 signaling pathway  
    involved_in vascular endothelial growth factor signaling pathway  
    involved_in vesicle-mediated intercellular transport  
    Items 1 - 25 of 73
    Component Evidence Code Pubs
    located_in axon  
    located_in cell surface  
    located_in cytosol  
    is_active_in dendrite  
    located_in dendrite  
    located_in dendritic spine  
    located_in extracellular region  
    located_in glutamatergic synapse  
    located_in hippocampal mossy fiber to CA3 synapse  
    located_in neuronal cell body  
    located_in nucleoplasm  
    is_active_in plasma membrane  
    located_in plasma membrane  
    located_in plasma membrane  
    located_in plasma membrane  
    located_in postsynapse PubMed 
    located_in postsynaptic membrane  
    located_in presynaptic membrane  

    General protein information

    Preferred Names
    ephrin type-B receptor 2
    Names
    EPH-like kinase 5
    developmentally-regulated Eph-related tyrosine kinase
    elk-related tyrosine kinase
    eph tyrosine kinase 3
    protein-tyrosine kinase HEK5
    renal carcinoma antigen NY-REN-47
    tyrosine-protein kinase TYRO5
    tyrosine-protein kinase receptor EPH-3
    NP_001296121.1
    NP_001296122.1
    NP_004433.2
    NP_059145.2
    XP_006710504.1
    XP_006710505.1
    XP_047305060.1
    XP_054191013.1
    XP_054191014.1
    XP_054191015.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    Genomic

    1. NG_011804.2 RefSeqGene

      Range
      5001..215663
      Download
      GenBank, FASTA, Sequence Viewer (Graphics), LRG_780

    mRNA and Protein(s)

    1. NM_001309192.2 → NP_001296121.1  ephrin type-B receptor 2 isoform 3 precursor

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks two in-frame exons in the 3' coding region compared to variant 2. It encodes isoform 3, which is shorter than isoform 2.
      Source sequence(s)
      AL035704, AL158086, AL512444
      UniProtKB/TrEMBL
      B4DSE0
      Conserved Domains (5) summary
      cd05065
      Location:558 → 826
      PTKc_EphR_B; Catalytic domain of the Protein Tyrosine Kinases, Class EphB Ephrin Receptors
      cd09552
      Location:852 → 922
      SAM_EPH-B2; SAM domain of EPH-B2 subfamily of tyrosine kinase receptors
      cd10477
      Location:19 → 196
      EphR_LBD_B2; Ligand Binding Domain of Ephrin type-B Receptor 2
      pfam00041
      Location:437 → 519
      fn3; Fibronectin type III domain
      pfam14575
      Location:500 → 558
      EphA2_TM; Ephrin type-A receptor 2 transmembrane domain
    2. NM_001309193.2 → NP_001296122.1  ephrin type-B receptor 2 isoform 4 precursor

      See identical proteins and their annotated locations for NP_001296122.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) uses an alternate in-frame splice site at an internal exon and alternate splice sites in the 3' coding region and 3' UTR, which results in a longer and novel 3' coding region compared to variant 2. It encodes isoform 4, which is longer than and has a distinct C-terminus compared to isoform 2.
      Source sequence(s)
      AL035704, AL158086, AL512444
      Consensus CDS
      CCDS81279.1
      UniProtKB/Swiss-Prot
      O43477, P29323, Q5T0U6, Q5T0U7, Q5T0U8
      UniProtKB/TrEMBL
      Q4LE53
      Related
      ENSP00000383053.3, ENST00000400191.7
      Conserved Domains (7) summary
      cd05065
      Location:616 → 884
      PTKc_EphR_B; Catalytic domain of the Protein Tyrosine Kinases, Class EphB Ephrin Receptors
      cd09552
      Location:910 → 980
      SAM_EPH-B2; SAM domain of EPH-B2 subfamily of tyrosine kinase receptors
      smart00454
      Location:910 → 977
      SAM; Sterile alpha motif
      cd10477
      Location:19 → 196
      EphR_LBD_B2; Ligand Binding Domain of Ephrin type-B Receptor 2
      pfam00041
      Location:437 → 520
      fn3; Fibronectin type III domain
      pfam07714
      Location:621 → 880
      Pkinase_Tyr; Protein tyrosine kinase
      pfam14575
      Location:548 → 616
      EphA2_TM; Ephrin type-A receptor 2 transmembrane domain
    3. NM_004442.7 → NP_004433.2  ephrin type-B receptor 2 isoform 2 precursor

      See identical proteins and their annotated locations for NP_004433.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) represents the longest transcript. It encodes isoform 2.
      Source sequence(s)
      AK025975, AL035704, BC067861, DB282024, L41939
      Consensus CDS
      CCDS230.1
      UniProtKB/TrEMBL
      Q4LE53
      Related
      ENSP00000363763.3, ENST00000374632.7
      Conserved Domains (5) summary
      cd05065
      Location:617 → 885
      PTKc_EphR_B; Catalytic domain of the Protein Tyrosine Kinases, Class EphB Ephrin Receptors
      cd09552
      Location:911 → 981
      SAM_EPH-B2; SAM domain of EPH-B2 subfamily of tyrosine kinase receptors
      cd10477
      Location:19 → 196
      EphR_LBD_B2; Ligand Binding Domain of Ephrin type-B Receptor 2
      pfam00041
      Location:437 → 519
      fn3; Fibronectin type III domain
      pfam14575
      Location:548 → 617
      EphA2_TM; Ephrin type-A receptor 2 transmembrane domain
    4. NM_017449.5 → NP_059145.2  ephrin type-B receptor 2 isoform 1 precursor

      See identical proteins and their annotated locations for NP_059145.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) uses an alternate in-frame splice site compared to variant 2. It encodes isoform 1, which is shorter than isoform 2.
      Source sequence(s)
      AL035704, AL158086, AL512444
      Consensus CDS
      CCDS229.2
      UniProtKB/TrEMBL
      Q4LE53
      Related
      ENSP00000363761.3, ENST00000374630.8
      Conserved Domains (5) summary
      cd05065
      Location:616 → 884
      PTKc_EphR_B; Catalytic domain of the Protein Tyrosine Kinases, Class EphB Ephrin Receptors
      cd09552
      Location:910 → 980
      SAM_EPH-B2; SAM domain of EPH-B2 subfamily of tyrosine kinase receptors
      cd10477
      Location:19 → 196
      EphR_LBD_B2; Ligand Binding Domain of Ephrin type-B Receptor 2
      pfam00041
      Location:437 → 519
      fn3; Fibronectin type III domain
      pfam14575
      Location:548 → 616
      EphA2_TM; Ephrin type-A receptor 2 transmembrane domain

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      22710838..22921500
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006710442.5 → XP_006710505.1  ephrin type-B receptor 2 isoform X2

      UniProtKB/TrEMBL
      Q4LE53
      Conserved Domains (7) summary
      cd05065
      Location:586 → 854
      PTKc_EphR_B; Catalytic domain of the Protein Tyrosine Kinases, Class EphB Ephrin Receptors
      cd09552
      Location:880 → 950
      SAM_EPH-B2; SAM domain of EPH-B2 subfamily of tyrosine kinase receptors
      smart00454
      Location:880 → 947
      SAM; Sterile alpha motif
      cd10477
      Location:19 → 196
      EphR_LBD_B2; Ligand Binding Domain of Ephrin type-B Receptor 2
      pfam00041
      Location:326 → 421
      fn3; Fibronectin type III domain
      pfam07714
      Location:591 → 850
      Pkinase_Tyr; Protein tyrosine kinase
      pfam14575
      Location:517 → 586
      EphA2_TM; Ephrin type-A receptor 2 transmembrane domain
    2. XM_047449104.1 → XP_047305060.1  ephrin type-B receptor 2 isoform X3

      UniProtKB/TrEMBL
      Q4LE53
    3. XM_006710441.5 → XP_006710504.1  ephrin type-B receptor 2 isoform X1

      UniProtKB/TrEMBL
      Q4LE53
      Conserved Domains (7) summary
      cd05065
      Location:610 → 878
      PTKc_EphR_B; Catalytic domain of the Protein Tyrosine Kinases, Class EphB Ephrin Receptors
      cd09552
      Location:904 → 974
      SAM_EPH-B2; SAM domain of EPH-B2 subfamily of tyrosine kinase receptors
      smart00454
      Location:904 → 971
      SAM; Sterile alpha motif
      cd10477
      Location:12 → 189
      EphR_LBD_B2; Ligand Binding Domain of Ephrin type-B Receptor 2
      pfam00041
      Location:430 → 513
      fn3; Fibronectin type III domain
      pfam07714
      Location:615 → 874
      Pkinase_Tyr; Protein tyrosine kinase
      pfam14575
      Location:541 → 610
      EphA2_TM; Ephrin type-A receptor 2 transmembrane domain

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      22535722..22747006
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054335039.1 → XP_054191014.1  ephrin type-B receptor 2 isoform X2

      UniProtKB/TrEMBL
      Q4LE53
    2. XM_054335040.1 → XP_054191015.1  ephrin type-B receptor 2 isoform X3

      UniProtKB/TrEMBL
      Q4LE53
    3. XM_054335038.1 → XP_054191013.1  ephrin type-B receptor 2 isoform X1

      UniProtKB/TrEMBL
      Q4LE53
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