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EPHB2 EPH receptor B2 [ Homo sapiens (human) ]

Gene ID: 2048, updated on 19-Sep-2021

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
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
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Genomic context

See EPHB2 in Genome Data Viewer
Location:
1p36.12
Exon count:
17
Annotation release Status Assembly Chr Location
109.20210514 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (22710770..22921500)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (23037331..23247993)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene complement C1q C chain Neighboring gene complement C1q B chain Neighboring gene microRNA 4684 Neighboring gene microRNA 4253 Neighboring gene lactamase beta like 1 Neighboring gene testis expressed 46

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 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

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC87492

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
 
enables amyloid-beta binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables amyloid-beta binding TAS
Traceable Author Statement
more info
PubMed 
enables axon guidance receptor activity IEA
Inferred from Electronic Annotation
more info
 
enables identical protein binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein tyrosine kinase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables protein-containing complex binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables signaling receptor binding IEA
Inferred from Electronic Annotation
more info
 
enables transmembrane receptor protein tyrosine kinase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables transmembrane-ephrin receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables transmembrane-ephrin receptor activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables transmembrane-ephrin receptor activity TAS
Traceable Author Statement
more info
PubMed 
Process Evidence Code Pubs
involved_in B cell activation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in angiogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in angiogenesis ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in axon guidance IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in axon guidance ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in axonal fasciculation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in camera-type eye morphogenesis IEA
Inferred from Electronic Annotation
more info
 
involved_in central nervous system projection neuron axonogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in commissural neuron axon guidance ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in corpus callosum development ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in dendritic spine development ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in dendritic spine morphogenesis ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in ephrin receptor signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in inner ear morphogenesis ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in learning ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in learning or memory ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in multicellular organism development IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in negative regulation of ERK1 and ERK2 cascade ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in negative regulation of NMDA glutamate receptor activity ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in negative regulation of Ras protein signal transduction ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in negative regulation of axonogenesis IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of cell adhesion IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of negative regulation of protein kinase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in negative regulation of protein phosphorylation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in nervous system development TAS
Traceable Author Statement
more info
PubMed 
involved_in neuron projection retraction IEA
Inferred from Electronic Annotation
more info
 
involved_in optic nerve morphogenesis IEA
Inferred from Electronic Annotation
more info
 
involved_in peptidyl-tyrosine phosphorylation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in phosphorylation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of B cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of NMDA glutamate receptor activity ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of cell migration IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in positive regulation of gene expression ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of immunoglobulin production IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of kinase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of long-term neuronal synaptic plasticity IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of long-term synaptic potentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of protein localization to plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of synapse assembly ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of synaptic plasticity ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of tumor necrosis factor production IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in postsynaptic membrane assembly IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of blood coagulation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of body fluid levels ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of neuronal synaptic plasticity ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in retinal ganglion cell axon guidance IEA
Inferred from Electronic Annotation
more info
 
involved_in roof of mouth development ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in trans-synaptic signaling by trans-synaptic complex, modulating synaptic transmission IEA
Inferred from Electronic Annotation
more info
 
involved_in transmembrane receptor protein tyrosine kinase signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in urogenital system development ISS
Inferred from Sequence or Structural Similarity
more info
 
Component Evidence Code Pubs
located_in axon ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in cytosol TAS
Traceable Author Statement
more info
 
located_in dendrite ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in extracellular region TAS
Traceable Author Statement
more info
 
located_in glutamatergic synapse IEA
Inferred from Electronic Annotation
more info
 
is_active_in integral component of plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in integral component of plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in integral component of postsynaptic membrane IEA
Inferred from Electronic Annotation
more info
 
located_in integral component of presynaptic membrane IEA
Inferred from Electronic Annotation
more info
 
is_active_in neuron projection IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in neuronal cell body IEA
Inferred from Electronic Annotation
more info
 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
 
located_in plasma membrane IDA
Inferred from Direct Assay
more info
 
located_in plasma membrane TAS
Traceable Author Statement
more info
 
located_in postsynapse TAS
Traceable Author Statement
more info
PubMed 
part_of receptor complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

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_024309663.1

NCBI Reference Sequences (RefSeq)

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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_001309192.2NP_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, Q4LE53, Q6NVW1
    Conserved Domains (5) summary
    cd05065
    Location:558826
    PTKc_EphR_B; Catalytic domain of the Protein Tyrosine Kinases, Class EphB Ephrin Receptors
    cd09552
    Location:852922
    SAM_EPH-B2; SAM domain of EPH-B2 subfamily of tyrosine kinase receptors
    cd10477
    Location:19196
    EphR_LBD_B2; Ligand Binding Domain of Ephrin type-B Receptor 2
    pfam00041
    Location:437519
    fn3; Fibronectin type III domain
    pfam14575
    Location:500558
    EphA2_TM; Ephrin type-A receptor 2 transmembrane domain
  2. NM_001309193.2NP_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
    P29323
    UniProtKB/TrEMBL
    Q4LE53, Q6NVW1
    Related
    ENSP00000383053.3, ENST00000400191.7
    Conserved Domains (7) summary
    cd05065
    Location:616884
    PTKc_EphR_B; Catalytic domain of the Protein Tyrosine Kinases, Class EphB Ephrin Receptors
    cd09552
    Location:910980
    SAM_EPH-B2; SAM domain of EPH-B2 subfamily of tyrosine kinase receptors
    smart00454
    Location:910977
    SAM; Sterile alpha motif
    cd10477
    Location:19196
    EphR_LBD_B2; Ligand Binding Domain of Ephrin type-B Receptor 2
    pfam00041
    Location:437520
    fn3; Fibronectin type III domain
    pfam07714
    Location:621880
    Pkinase_Tyr; Protein tyrosine kinase
    pfam14575
    Location:548616
    EphA2_TM; Ephrin type-A receptor 2 transmembrane domain
  3. NM_004442.7NP_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/Swiss-Prot
    P29323
    UniProtKB/TrEMBL
    Q6NVW1
    Related
    ENSP00000363763.3, ENST00000374632.7
    Conserved Domains (5) summary
    cd05065
    Location:617885
    PTKc_EphR_B; Catalytic domain of the Protein Tyrosine Kinases, Class EphB Ephrin Receptors
    cd09552
    Location:911981
    SAM_EPH-B2; SAM domain of EPH-B2 subfamily of tyrosine kinase receptors
    cd10477
    Location:19196
    EphR_LBD_B2; Ligand Binding Domain of Ephrin type-B Receptor 2
    pfam00041
    Location:437519
    fn3; Fibronectin type III domain
    pfam14575
    Location:548617
    EphA2_TM; Ephrin type-A receptor 2 transmembrane domain
  4. NM_017449.5NP_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/Swiss-Prot
    P29323
    UniProtKB/TrEMBL
    Q4LE53, Q6NVW1
    Related
    ENSP00000363761.3, ENST00000374630.8
    Conserved Domains (5) summary
    cd05065
    Location:616884
    PTKc_EphR_B; Catalytic domain of the Protein Tyrosine Kinases, Class EphB Ephrin Receptors
    cd09552
    Location:910980
    SAM_EPH-B2; SAM domain of EPH-B2 subfamily of tyrosine kinase receptors
    cd10477
    Location:19196
    EphR_LBD_B2; Ligand Binding Domain of Ephrin type-B Receptor 2
    pfam00041
    Location:437519
    fn3; Fibronectin type III domain
    pfam14575
    Location:548616
    EphA2_TM; Ephrin type-A receptor 2 transmembrane domain

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    22710770..22921500
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006710442.4XP_006710505.1  ephrin type-B receptor 2 isoform X2

    Conserved Domains (7) summary
    cd05065
    Location:586854
    PTKc_EphR_B; Catalytic domain of the Protein Tyrosine Kinases, Class EphB Ephrin Receptors
    cd09552
    Location:880950
    SAM_EPH-B2; SAM domain of EPH-B2 subfamily of tyrosine kinase receptors
    smart00454
    Location:880947
    SAM; Sterile alpha motif
    cd10477
    Location:19196
    EphR_LBD_B2; Ligand Binding Domain of Ephrin type-B Receptor 2
    pfam00041
    Location:326421
    fn3; Fibronectin type III domain
    pfam07714
    Location:591850
    Pkinase_Tyr; Protein tyrosine kinase
    pfam14575
    Location:517586
    EphA2_TM; Ephrin type-A receptor 2 transmembrane domain
  2. XM_006710441.4XP_006710504.1  ephrin type-B receptor 2 isoform X1

    Related
    ENSP00000363758.1, ENST00000374627.1
    Conserved Domains (7) summary
    cd05065
    Location:610878
    PTKc_EphR_B; Catalytic domain of the Protein Tyrosine Kinases, Class EphB Ephrin Receptors
    cd09552
    Location:904974
    SAM_EPH-B2; SAM domain of EPH-B2 subfamily of tyrosine kinase receptors
    smart00454
    Location:904971
    SAM; Sterile alpha motif
    cd10477
    Location:12189
    EphR_LBD_B2; Ligand Binding Domain of Ephrin type-B Receptor 2
    pfam00041
    Location:430513
    fn3; Fibronectin type III domain
    pfam07714
    Location:615874
    Pkinase_Tyr; Protein tyrosine kinase
    pfam14575
    Location:541610
    EphA2_TM; Ephrin type-A receptor 2 transmembrane domain
  3. XM_024453895.1XP_024309663.1  ephrin type-B receptor 2 isoform X3

    Conserved Domains (4) summary
    cd05065
    Location:175443
    PTKc_EphR_B; Catalytic domain of the Protein Tyrosine Kinases, Class EphB Ephrin Receptors
    cd09552
    Location:469539
    SAM_EPH-B2; SAM domain of EPH-B2 subfamily of tyrosine kinase receptors
    pfam00041
    Location:178
    fn3; Fibronectin type III domain
    pfam14575
    Location:107175
    EphA2_TM; Ephrin type-A receptor 2 transmembrane domain
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