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0SEM5B_HUMAN*   SwissProt (?) | Description Local Annotation Link Reference
General Information
NameSEMA5B
DescriptionSemaphorin 5b precursor.
SpeciesHomo sapiens (NCBI taxonomy ID: 9606)
GON/A
Domain Architecture (Details)
InterPro domains unassigned to SynO:
The Sema domain occurs in semaphorins.hich are a large family of secreted and transmembrane proteins.ome of which function as repellent signals during axon guidance. Sema domains also occur in a hepatocyte growth factor receptor.n SEX protein and in viral proteins.CD100 (also called SEMA4D) is associated with PTPase and serine kinase activity. CD100 increases PMA.D3 and CD2 induced T cell proliferation.ncreases CD45 induced T cell adhesion.nduces B cell homotypic adhesion and down-regulates B cell expression of CD23.The Sema domain is characterised by a conserved set of cysteine residues.hich form four disulfide bonds to stabilise the structure. The Sema domainfold is a variation of the beta propeller topology.ith seven blades radiallyarranged around a central axis. Each blade contains a four-stranded (strands A to D) antiparallel beta sheet. The inner strand of eachblade (A) lines the channel at the center of the propeller.ith strands B andC of the same repeat radiating outward.nd strand D of the next repeatforming the outer edge of the blade. The large size of the Sema domain is notdue to a single inserted domain but results from the presence of additionnalsecondary structure elements inserted in most of the blades. The Sema domainuses a loop and hook system to close the circle between the first and thelast blades. The blades are constructed sequentially with an N-terminal beta-strand closing the circle by providing the outermost strand (D) of the seventh(C-terminal) blade. The beta-propeller is further stabilized by an extensionof the N-terminus.roviding an additional.ifth beta-strand on the outeredge of blade 6 .CD molecules are leucocyte antigens on cell surfaces. CD antigens nomenclature is updated at http://www.ncbi.nlm.nih.gov/PROW/guide/45277084.htm
  IPR001627:Semaphorin/CD100 antigen
This is a cysteine rich repeat found in several different extracellular receptors. The function of the repeat is unknown. Three copies of the repeat are found in plexin () . Two copies of the repeat are found in mahogany protein. A related Caenorhabditis elegans protein () contains four copies of the repeat.hile the Met receptor contains a single copy of the repeat.
  IPR002165:Plexin
This repeat was first described in 1986 by Lawler and Hynes . It was found in the thrombospondin protein where it is repeated 3 times. Now a number of proteins involved in the complement pathway (properdin.6.7.8A.8B.9) as well as extracellular matrix protein like mindin.-spondin .CO-spondin and even the circumsporozoite surface protein 2 and TRAP proteins of Plasmodium .ontain one or more instance of this repeat.It has been involved in cell-cell interraction.nhibition of angiogenesis andapoptosis . The intron-exon organisation of the properdin gene confirms the hypothesis that the repeat might have evolved by a process involving exon shuffling .A study of properdin structure provides some information about the structure ofthe thrombospondin type I repeat .
  IPR000884:Thrombospondin, type I
This is a domain that has been found in plexins.emaphorins and integrins. Plexin is involved in the development of neural and epithelial tissues; semaphorins induce the collapse and paralysis of neuronal growth cones; and integrins may mediate adhesive or migratory functions of epithelial cells.
  IPR003659:Plexin/semaphorin/integrin
The TSP1 (thrombospondin 1) repeat was first identified in thethrombospondin protein.here it is repeated 3 times . The domain is ~60 amino acid residues in length and is characterised by a highly conserved W-S-X-W motif and six cysteine residues. TSP1 repeats have been identified in a number of proteins including: the complement pathwayproteins properdin.6.7.8A.8B and C9; extracellular matrix proteins.ncluding mindin.DAMTS and F-spondin; Plasmodium TRAP proteins; and G protein-coupled receptors.uch as the brain-specific angiogenesis inhibitors. The domains have a number of functions.ncluding effects on cell attachment.otility.roliferation.he activities of extracellularproteases.nd inhibition of angiogenesis.ontributing to vascular homeostasis. A study of the structure of properdin indicates that the TSP1 repeat contains two amphipathic turn regions and a hydrophilic beta-strand .
  IPR008085:Thrombospondin, subtype 1
IPR001627:Sema 
Evalue:-202.88606262207 
Location:68-479IPR000884:TSP1 
Evalue:-16.1191864077192 
Location:798-850IPR002165:PSI 
Evalue:-14.8860569000244 
Location:497-544IPR000884:TSP1 
Evalue:-14.1487416512809 
Location:609-662IPR000884:TSP1 
Evalue:-13 
Location:855-907IPR000884:TSP1 
Evalue:-10.2146701649892 
Location:667-713IPR000884:TSP_1 
Evalue:-3.52287864685059 
Location:911-951
SequencesProtein: SEM5B_HUMAN (1093 aa)
mRNA: NM_001031702 NM_018987
Local Annotation
Synapse Ontology
A process that increases short-term neuronal synaptic plasticity, the ability of neuronal synapses to change in the short-term as circumstances require. Short-term neuronal synaptic plasticity generally involves increasing or decreasing synaptic sensitivity.
sdb:0043 positive regulation of short-term neuronal synaptic plasticity  (Evidence:keywords)
KO assignmentK06841
  Level 3 annotation:
    semaphorin 5
  Level 2 annotation:
    CAM ligands
    Axon guidance
Loci Structure (Details)Loci index, Chromosomal location, Length, Possible relational loci clusterExon1: 370 residues, 124110730-124111838Exon2: 70 residues, 124112376-124112582Exon3: 17 residues, 124113027-124113072Exon4: 52 residues, 124113456-124113606Exon5: 59 residues, 124113708-124113879Exon6: 75 residues, 124114379-124114598Exon7: 77 residues, 124114735-124114961Exon8: 51 residues, 124115070-124115218Exon9: 50 residues, 124115394-124115538Exon10: 62 residues, 124116976-124117158Exon11: 41 residues, 124117309-124117427Exon12: 71 residues, 124123451-124123659Exon13: 71 residues, 124123776-124123984Exon14: 47 residues, 124125153-124125289Exon15: 97 residues, 124127928-124128214Exon16: 73 residues, 124129326-124129540Exon17: 35 residues, 124130053-124130152Exon18: 23 residues, 124130532-124130595Exon19: 17 residues, 124140961-124141007Exon20: 35 residues, 124144972-124145072Exon21: 70 residues, 124150042-124150246Exon22: 56 residues, 124162676-124162838Exon23: 12 residues, 124229000-124229032Exon24: 2 residues, -Jump to SEM5B_HUMANExon1: 370 residues, 124110730-124111838Exon2: 70 residues, 124112376-124112582Exon3: 17 residues, 124113027-124113072Exon4: 52 residues, 124113456-124113606Exon5: 59 residues, 124113708-124113879Exon6: 75 residues, 124114379-124114598Exon7: 77 residues, 124114735-124114961Exon8: 51 residues, 124115070-124115218Exon9: 50 residues, 124115394-124115538Exon10: 62 residues, 124116976-124117158Exon11: 41 residues, 124117309-124117427Exon12: 71 residues, 124123451-124123659Exon13: 71 residues, 124123776-124123984Exon14: 47 residues, 124125153-124125289Exon15: 97 residues, 124127928-124128214Exon16: 73 residues, 124129326-124129540Exon17: 35 residues, 124130053-124130152Exon18: 23 residues, 124130532-124130595Exon19: 17 residues, 124140961-124141007Exon20: 35 residues, 124144972-124145072Exon21: 70 residues, 124150042-124150246Exon22: 56 residues, 124162676-124162838Exon23: 12 residues, 124229000-124229032Exon24: 2 residues, -Jump to SEM5B_HUMANExon1: 369 residues, 124110732-124111838Exon2: 70 residues, 124112376-124112582Exon3: 60 residues, 124112896-124113072Exon4: 51 residues, 124113456-124113603Exon5: 59 residues, 124113708-124113879Exon6: 75 residues, 124114379-124114598Exon7: 77 residues, 124114735-124114961Exon8: 50 residues, 124115073-124115218Exon9: 50 residues, 124115394-124115538Exon10: 62 residues, 124116976-124117158Exon11: 41 residues, 124117309-124117427Exon12: 71 residues, 124123451-124123659Exon13: 71 residues, 124123776-124123984Exon14: 47 residues, 124125153-124125289Exon15: 97 residues, 124127928-124128214Exon16: 73 residues, 124129326-124129540Exon17: 35 residues, 124130053-124130152Exon18: 23 residues, 124130532-124130595Exon19: 17 residues, 124140961-124141007Exon20: 35 residues, 124144972-124145072Exon21: 70 residues, 124150042-124150246Exon22: 56 residues, 124162676-124162838Exon23: 55 residues, 124229983-124230142Exon24: 2 residues, -Jump to SEM5B_HUMAN  
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Loci Cluster (Details)Loci: 3372 124403498-124474043 ~-71K 26333(+)Loci: 4629 124110730-124230142 ~-119K 26328(SEMA5B)(-)Link out to UCSC