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Aliases for PLXNB1 Gene

Aliases for PLXNB1 Gene

  • Plexin B1 2 3 5
  • Semaphorin Receptor SEP 3 4
  • PLXN5 3 4
  • SEP 3 4
  • PLEXIN-B1 3
  • Plexin 5 3
  • KIAA0407 4

External Ids for PLXNB1 Gene

Previous HGNC Symbols for PLXNB1 Gene

  • PLXN5

Previous GeneCards Identifiers for PLXNB1 Gene

  • GC03M048246
  • GC03M047727
  • GC03M048405

Summaries for PLXNB1 Gene

GeneCards Summary for PLXNB1 Gene

PLXNB1 (Plexin B1) is a Protein Coding gene. Among its related pathways are Semaphorin interactions and p75 NTR receptor-mediated signalling. GO annotations related to this gene include receptor activity and GTPase activating protein binding. An important paralog of this gene is PLXNB3.

UniProtKB/Swiss-Prot for PLXNB1 Gene

  • Receptor for SEMA4D. Plays a role in RHOA activation and subsequent changes of the actin cytoskeleton. Plays a role in axon guidance, invasive growth and cell migration.

Gene Wiki entry for PLXNB1 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PLXNB1 Gene

Genomics for PLXNB1 Gene

Regulatory Elements for PLXNB1 Gene

Enhancers for PLXNB1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH03G048464 1.4 ENCODE dbSUPER 11.6 -39.8 -39765 11.4 HDGF PKNOX1 CREB3L1 ARNT AGO1 ZFP64 WRNIP1 SIN3A ARID4B DMAP1 TMA7 ATRIP SHISA5 ENSG00000223343 ENSG00000244380 CCDC51 PLXNB1 COL7A1 UCN2 PFKFB4
GH03G048401 1.2 Ensembl ENCODE dbSUPER 12.2 +27.9 27854 1.7 PAF1 JUN BHLHE40 USF2 MAX MNT FOSL1 JUND POLR2A ZNF600 SHISA5 PLXNB1 FBXW12 CCDC51 TMA7 ATRIP NME6 ENSG00000244380 SPINK8 RN7SL321P
GH03G048400 1 ENCODE dbSUPER 12.2 +29.2 29246 0.2 CTCF ZNF792 SAP130 TEAD4 ZMYM3 RAD21 RFX5 TEAD3 ZNF121 GATA3 PLXNB1 FBXW12 TMA7 CCDC51 ATRIP NME6 SHISA5 ENSG00000244380 SPINK8 RN7SL321P
GH03G048398 1 dbSUPER 12.2 +31.1 31112 0.9 HDGF PKNOX1 CREB3L1 ARID4B SIN3A DMAP1 YY1 ZNF143 ZNF263 SP3 NME6 SHISA5 PLXNB1 QRICH1 FBXW12 CCDC51 TMA7 ATRIP ENSG00000225399 ENSG00000244380
GH03G048239 1.1 ENCODE 10.7 +189.4 189401 2.8 HDGF PKNOX1 MLX CREB3L1 ZFP64 ARID4B SIN3A FEZF1 DMAP1 ZNF2 ZNF589 QRICH1 CCDC71 CDC25A PLXNB1 NME6 TMA7 CCDC51 ATRIP ENSG00000244380
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around PLXNB1 on UCSC Golden Path with GeneCards custom track

Promoters for PLXNB1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000152103 924 1601 FOXA2 MLX ZFP64 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 ZNF143

Transcription factor binding sites by QIAGEN in the PLXNB1 gene promoter:

Genomic Location for PLXNB1 Gene

Chromosome:
3
Start:
48,403,854 bp from pter
End:
48,430,324 bp from pter
Size:
26,471 bases
Orientation:
Minus strand

Genomic View for PLXNB1 Gene

Genes around PLXNB1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PLXNB1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PLXNB1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PLXNB1 Gene

Proteins for PLXNB1 Gene

  • Protein details for PLXNB1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O43157-PLXB1_HUMAN
    Recommended name:
    Plexin-B1
    Protein Accession:
    O43157
    Secondary Accessions:
    • A6H8Y2
    • Q6NY20
    • Q9UIV7
    • Q9UJ92
    • Q9UJ93

    Protein attributes for PLXNB1 Gene

    Size:
    2135 amino acids
    Molecular mass:
    232298 Da
    Quaternary structure:
    • Monomer, and heterodimer with PLXNB2 after proteolytic processing. Binds RAC1 that has been activated by GTP binding. Interaction with SEMA4D promotes binding of cytoplasmic ligands. Binds PLXNA1 (By similarity). Interacts with ARHGEF11, ARHGEF12, ERBB2, MET, MST1R, RRAS, RHOD, RND1, NRP1 and NRP2.
    SequenceCaution:
    • Sequence=BAA23703.2; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for PLXNB1 Gene

    Alternative splice isoforms for PLXNB1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PLXNB1 Gene

Post-translational modifications for PLXNB1 Gene

  • Phosphorylated on tyrosine residues by ERBB2 and MET upon SEMA4D binding.
  • Proteolytic processing favors heterodimerization with PLXNB2 and SEMA4D binding.
  • Glycosylation at posLast=3131, Asn334, Asn543, Ser691, Ser693, posLast=696696, Asn1183, posLast=12531253, and posLast=13301330
  • Modification sites at PhosphoSitePlus

Antibody Products

No data available for DME Specific Peptides for PLXNB1 Gene

Domains & Families for PLXNB1 Gene

Gene Families for PLXNB1 Gene

Suggested Antigen Peptide Sequences for PLXNB1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O43157

UniProtKB/Swiss-Prot:

PLXB1_HUMAN :
  • Belongs to the plexin family.
Family:
  • Belongs to the plexin family.
genes like me logo Genes that share domains with PLXNB1: view

Function for PLXNB1 Gene

Molecular function for PLXNB1 Gene

GENATLAS Biochemistry:
plexin B1,calcium-dependent cell adhesion molecule at the neuronal cell surface,also expressed in hematopoietic and endothelial cells,receptor for the semaphorin,homologous to the hepatocyte growth factor receptor family
UniProtKB/Swiss-Prot Function:
Receptor for SEMA4D. Plays a role in RHOA activation and subsequent changes of the actin cytoskeleton. Plays a role in axon guidance, invasive growth and cell migration.

Gene Ontology (GO) - Molecular Function for PLXNB1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004872 receptor activity TAS 8570614
GO:0004888 transmembrane signaling receptor activity NAS 10520995
GO:0005096 GTPase activator activity TAS --
GO:0005515 protein binding IPI 12730235
GO:0017154 semaphorin receptor activity TAS 10520995
genes like me logo Genes that share ontologies with PLXNB1: view
genes like me logo Genes that share phenotypes with PLXNB1: view

Animal Models for PLXNB1 Gene

MGI Knock Outs for PLXNB1:

Animal Model Products

  • Taconic Biosciences Mouse Models for PLXNB1

miRNA for PLXNB1 Gene

miRTarBase miRNAs that target PLXNB1

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for PLXNB1 Gene

Localization for PLXNB1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PLXNB1 Gene

Isoform 1: Cell membrane; Single-pass type I membrane protein.
Isoform 2: Secreted.
Isoform 3: Secreted.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for PLXNB1 gene
Compartment Confidence
plasma membrane 5
extracellular 5
cytoskeleton 1
peroxisome 1
endoplasmic reticulum 1
cytosol 1

Gene Ontology (GO) - Cellular Components for PLXNB1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002116 semaphorin receptor complex TAS 19909241
GO:0005576 extracellular region IEA --
GO:0005622 intracellular IEA --
GO:0005886 plasma membrane TAS --
GO:0005887 integral component of plasma membrane NAS,TAS 10520995
genes like me logo Genes that share ontologies with PLXNB1: view

Pathways & Interactions for PLXNB1 Gene

genes like me logo Genes that share pathways with PLXNB1: view

Pathways by source for PLXNB1 Gene

SIGNOR curated interactions for PLXNB1 Gene

Is activated by:

Gene Ontology (GO) - Biological Process for PLXNB1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007162 negative regulation of cell adhesion IDA 15218527
GO:0007165 signal transduction TAS 8570614
GO:0008360 regulation of cell shape IDA 19843518
GO:0014068 positive regulation of phosphatidylinositol 3-kinase signaling ISS --
GO:0016477 cell migration NAS 10520995
genes like me logo Genes that share ontologies with PLXNB1: view

Drugs & Compounds for PLXNB1 Gene

(4) Drugs for PLXNB1 Gene - From: HMDB and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Guanosine triphosphate Experimental Pharma 0

(1) Additional Compounds for PLXNB1 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with PLXNB1: view

Transcripts for PLXNB1 Gene

Unigene Clusters for PLXNB1 Gene

Plexin B1:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for PLXNB1 Gene

ExUns: 1 ^ 2 ^ 3a · 3b ^ 4 ^ 5a · 5b · 5c ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12a · 12b · 12c ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18a · 18b ^ 19a · 19b ^
SP1: -
SP2: - -
SP3: - - -
SP4:
SP5:
SP6:
SP7:
SP8: -
SP9:
SP10:
SP11:
SP12: - - - - - - - - - -
SP13: -
SP14:

ExUns: 20 ^ 21 ^ 22a · 22b ^ 23a · 23b ^ 24a · 24b · 24c ^ 25 ^ 26a · 26b ^ 27a · 27b ^ 28 ^ 29 ^ 30 ^ 31a · 31b · 31c ^ 32 ^ 33 ^ 34a · 34b ^ 35a · 35b ^
SP1: - -
SP2: - -
SP3:
SP4: -
SP5:
SP6: - -
SP7: -
SP8:
SP9:
SP10:
SP11:
SP12:
SP13:
SP14:

ExUns: 36 ^ 37 ^ 38 ^ 39 ^ 40a · 40b
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:
SP13:
SP14:

Relevant External Links for PLXNB1 Gene

GeneLoc Exon Structure for
PLXNB1
ECgene alternative splicing isoforms for
PLXNB1

Expression for PLXNB1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PLXNB1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for PLXNB1 Gene

This gene is overexpressed in Spinal cord (14.6), Serum (7.5), and Frontal cortex (6.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for PLXNB1 Gene



NURSA nuclear receptor signaling pathways regulating expression of PLXNB1 Gene:

PLXNB1

SOURCE GeneReport for Unigene cluster for PLXNB1 Gene:

Hs.476209

mRNA Expression by UniProt/SwissProt for PLXNB1 Gene:

O43157-PLXB1_HUMAN
Tissue specificity: Highly expressed in fetal kidney, and at slightly lower levels in fetal brain, lung and liver.

Evidence on tissue expression from TISSUES for PLXNB1 Gene

  • Nervous system(4.9)
  • Liver(4.3)
  • Bone marrow(4.1)
  • Kidney(2.3)
genes like me logo Genes that share expression patterns with PLXNB1: view

Primer Products

No data available for mRNA differential expression in normal tissues , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for PLXNB1 Gene

Orthologs for PLXNB1 Gene

This gene was present in the common ancestor of animals.

Orthologs for PLXNB1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PLXNB1 34 35
  • 99.63 (n)
dog
(Canis familiaris)
Mammalia PLXNB1 34 35
  • 88.93 (n)
cow
(Bos Taurus)
Mammalia PLXNB1 34 35
  • 87.41 (n)
mouse
(Mus musculus)
Mammalia Plxnb1 34 16 35
  • 85.94 (n)
rat
(Rattus norvegicus)
Mammalia Plxnb1 34
  • 85.54 (n)
oppossum
(Monodelphis domestica)
Mammalia PLXNB1 35
  • 73 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia PLXNB1 35
  • 63 (a)
OneToOne
chicken
(Gallus gallus)
Aves PLXNB1 34 35
  • 68.57 (n)
lizard
(Anolis carolinensis)
Reptilia PLXNB1 35
  • 61 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia plxnb1 34
  • 61.53 (n)
Str.10773 34
zebrafish
(Danio rerio)
Actinopterygii plxnb1a 35
  • 76 (a)
OneToMany
plxnb1b 34 35
  • 60.03 (n)
wufb83a09 34
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP011139 34
  • 49.08 (n)
fruit fly
(Drosophila melanogaster)
Insecta plexB 36 34 35
  • 45.09 (n)
worm
(Caenorhabditis elegans)
Secernentea plx-2 36 35
  • 28 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 36 (a)
OneToMany
Species where no ortholog for PLXNB1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for PLXNB1 Gene

ENSEMBL:
Gene Tree for PLXNB1 (if available)
TreeFam:
Gene Tree for PLXNB1 (if available)

Paralogs for PLXNB1 Gene

Paralogs for PLXNB1 Gene

(7) SIMAP similar genes for PLXNB1 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with PLXNB1: view

Variants for PLXNB1 Gene

Sequence variations from dbSNP and Humsavar for PLXNB1 Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type
VAR_036074 A breast cancer sample
rs1000065332 -- 48,412,139(+) CTGCT(C/G)TGGCA intron-variant
rs1000097168 -- 48,406,760(+) TGTGA(A/C)GGGGG intron-variant
rs1000265027 -- 48,408,161(+) ACACA(C/T)CACCA intron-variant
rs1000436420 -- 48,427,236(+) AATGG(C/G)CGGGA intron-variant, nc-transcript-variant, utr-variant-5-prime

Structural Variations from Database of Genomic Variants (DGV) for PLXNB1 Gene

Variant ID Type Subtype PubMed ID
nsv1072254 CNV deletion 25765185
nsv1118969 CNV deletion 24896259
nsv508917 CNV insertion 20534489
nsv590242 CNV loss 21841781
nsv834683 CNV gain 17160897
nsv834684 CNV gain 17160897
nsv954483 CNV deletion 24416366

Variation tolerance for PLXNB1 Gene

Residual Variation Intolerance Score: 21% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.06; 60.70% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PLXNB1 Gene

Human Gene Mutation Database (HGMD)
PLXNB1
SNPedia medical, phenotypic, and genealogical associations of SNPs for
PLXNB1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PLXNB1 Gene

Disorders for PLXNB1 Gene

Relevant External Links for PLXNB1

Genetic Association Database (GAD)
PLXNB1
Human Genome Epidemiology (HuGE) Navigator
PLXNB1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
PLXNB1

No disorders were found for PLXNB1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PLXNB1 Gene

Publications for PLXNB1 Gene

  1. The semaphorin receptor plexin-B1 specifically interacts with active Rac in a ligand-dependent manner. (PMID: 11035813) Vikis H.G. … Guan K.-L. (Proc. Natl. Acad. Sci. U.S.A. 2000) 2 3 4 22 64
  2. Structure and function of the intracellular region of the plexin-B1 transmembrane receptor. (PMID: 19843518) Tong Y. … Buck M. (J. Biol. Chem. 2009) 3 4 22 64
  3. Insights into oncogenic mutations of plexin-B1 based on the solution structure of the Rho GTPase binding domain. (PMID: 18275816) Tong Y. … Buck M. (Structure 2008) 3 4 22 64
  4. Binding of Rac1, Rnd1, and RhoD to a novel Rho GTPase interaction motif destabilizes dimerization of the plexin-B1 effector domain. (PMID: 17916560) Tong Y. … Buck M. (J. Biol. Chem. 2007) 3 4 22 64
  5. Interplay between scatter factor receptors and B plexins controls invasive growth. (PMID: 15184888) Conrotto P. … Giordano S. (Oncogene 2004) 3 4 22 64

Products for PLXNB1 Gene

Sources for PLXNB1 Gene

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