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Tbio
SEMA4D
Semaphorin-4D

Protein Summary
Description
Cell surface receptor for PLXN1B and PLXNB2 that plays an important role in cell-cell signaling. Promotes reorganization of the actin cytoskeleton and plays a role in axonal growth cone guidance in the developing central nervous system. Regulates dendrite and axon branching and morphogenesis. Promotes the migration of cerebellar granule cells and of endothelial cells. Plays a role in the immune system; induces B-cells to aggregate and improves their viability (in vitro). Promotes signaling via SRC and PTK2B/PYK2, which then mediates activation of phosphatidylinositol 3-kinase and of the AKT1 signaling cascade. Interaction with PLXNB1 mediates activation of RHOA.
Uniprot Accession IDs
Gene Name
Ensembl ID
  • ENST00000339861
  • ENSP00000344923
  • ENSG00000187764
  • ENST00000356444
  • ENSP00000348822
  • ENST00000420987
  • ENSP00000391733
  • ENST00000422704
  • ENSP00000388768
  • ENST00000438547
  • ENSP00000405102
  • ENST00000450295
  • ENSP00000416523
  • ENST00000455551
  • ENSP00000411981

Symbol
  • C9orf164
  • CD100
  • SEMAJ
  • CD100
  • COLL4
  • SEMAJ
  • coll-4
  • C9orf164
  • M-sema-G
Illumination Graph
Knowledge Table
Most Knowledge About
Knowledge Value (0 to 1 scale)
protein domain
0.99
biological process
0.98
disease perturbation
0.83
microRNA
0.8
cell line
0.68


Related Tools
Target Illumination GWAS Analytics (TIGA)
Thumbnail image for Target Illumination GWAS Analytics (TIGA)
TIGA scores and ranks GWAS discovered associations according to the quantity and quality of the evidence supporting the association.
GENEVA
Thumbnail image for GENEVA
GENEVA (GENe Expression Variance Analysis) allows you to identify RNA-sequencing datasets from the Gene Expression Omnibus (GEO) that contain conditions modulating a gene or a gene signature.
GlyGen
Thumbnail image for GlyGen
GlyGen is a data integration and dissemination project for carbohydrate and glycoconjugate related data.
IDG Development Level Summary
Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 280.26   (req: < 5)
Gene RIFs: 68   (req: <= 3)
Antibodies: 795   (req: <= 50)
Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 280.26   (req: >= 5)
Gene RIFs: 68   (req: > 3)
Antibodies: 795   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 31
Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligand: 0
Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drug: 0
GWAS Traits (14)
GWAS Trait
EFO ID
Study Count
SNP Count
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
reticulocyte count
6
5
6
77
reticulocyte measurement
2
2
2
76.7
body mass index
3
3
2
2.9
67.1
triglyceride measurement
2
2
2
63.6
mean corpuscular volume
1
1
1
56.8
GWAS Trait
EFO ID
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
reticulocyte count
6
77
reticulocyte measurement
2
76.7
body mass index
2
2.9
67.1
triglyceride measurement
2
63.6
mean corpuscular volume
1
56.8
Orthologs (11)
1 – 5 of 11
Species
Name
Source ID
Gene ID
OMA
EggNOG
Inparanoid
Chimp
semaphorin 4D
VGNC:13960
464584
Macaque
semaphorin 4D
697697
Mouse
MGI:109244
20354
Rat
RGD:1310554
306790
Dog
semaphorin 4D
VGNC:53974
476350
Species
Name
OMA
EggNOG
Inparanoid
Chimp
semaphorin 4D
Macaque
semaphorin 4D
Mouse
Rat
Dog
semaphorin 4D
Protein Structure (2 Structures, 1 AlphaFold Model)
RepresentationColor Scheme

Click on a row in the table to change the structure displayed.
More information can be found at RCSB PDB

AF-Q92854-F1-model_v1

AlphaFold Structures Developed by DeepMind and EMBL-EBI

1 – 2 of 2
PDB Structure Id
Ligand
Method
Resolution (Å)
Residues
Fraction of Total Protein
Pub Year
Title
PDB Structure Id
Fraction of Total Protein
Resolution
Pub Year
Pathways (9)
Axon guidance (R-HSA-422475)

Click on a row in the table to change the structure displayed.

Items per page:
1 – 5 of 7
Data Source
Name
Explore in Pharos
Explore in Source
Reactome
Axon guidance
Reactome
Developmental Biology
Reactome
Other semaphorin interactions
Reactome
Sema4D in semaphorin signaling
Reactome
Sema4D induced cell migration and growth-cone collapse
Name
Explore in Pharos
Explore in Source
Axon guidance
Developmental Biology
Other semaphorin interactions
Sema4D in semaphorin signaling
Sema4D induced cell migration and growth-cone collapse
Gene Ontology Terms (34)
Items per page:
10
1 – 7 of 7
GO Term
Evidence
Assigned by
Inferred from Direct Assay (IDA)
HGNC
Inferred from Direct Assay (IDA)
UniProtKB
Inferred from Physical Interaction (IPI)
IntAct
Inferred from Physical Interaction (IPI)
UniProtKB
Inferred from Mutant Phenotype (IMP)
UniProtKB
Inferred from Biological aspect of Ancestor (IBA)
GO_Central
Inferred from Biological aspect of Ancestor (IBA)
GO_Central
Protein-Protein Interactions (106)
1 – 10 of 106
CST9L
Tdark
Novelty:  0.21941207
p_int:  0.999999047
p_ni:  9.53e-7
Data Source:  BioPlex
SCGB2A2
Tbio
Novelty:  0.01594053
p_int:  0.99996221
p_ni:  0.000009487
p_wrong:  0.000028302
Score:  0.198
Data Source:  BioPlex,STRINGDB
SCGB1D1
Tbio
Novelty:  0.04199997
p_int:  0.999743484
p_ni:  0.000217704
p_wrong:  0.000038812
Data Source:  BioPlex
VCAM1
Tchem
Novelty:  0.00022504
p_int:  0.999612167
p_ni:  0.000387833
Score:  0.261
Data Source:  BioPlex,STRINGDB
LCN6
Tbio
Novelty:  0.11406686
p_int:  0.999506993
p_ni:  0.00036848
p_wrong:  0.000124527
Data Source:  BioPlex
ST8SIA4
Tbio
Family:  Enzyme
Novelty:  0.00338436
p_int:  0.996746675
p_ni:  0.001443269
p_wrong:  0.001810055
Score:  0.278
Data Source:  BioPlex,STRINGDB
PLXNB1
Tbio
Novelty:  0.01073808
Score:  0.997
Data Source:  Reactome,STRINGDB
CD72
Tbio
Novelty:  0.00787437
Score:  0.986
Data Source:  Reactome,STRINGDB
RND1
Tbio
Family:  Enzyme
Novelty:  0.00834946
Score:  0.974
Data Source:  Reactome,STRINGDB
PLXNB3
Tbio
Novelty:  0.02948198
Score:  0.965
Data Source:  STRINGDB
Publication Statistics
PubMed Score  280.26

PubMed score by year
PubTator Score  187.48

PubTator score by year
Amino Acid Sequence
Residue Counts
Protein Sequence
ProtVista Viewer
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