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0SEM6C_HUMAN*   SwissProt (?) | Description Local Annotation Link Reference
General Information
NameSEMA6C
DescriptionSemaphorin 6c precursor (semaphorin y) (sema y).
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 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
Homeodomain proteins are transcription factors that share a related DNA binding homeodomain . The homeodomain was first identified in a number of Drosophila homeotic and segmentation proteins.ut is now known to be well conserved in many other animals.ncluding vertebrates. The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices.hich make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions.hich occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA. The first helix helps to stabilise the structure. Many proteins contain homeodomains.ncluding Drosophila Engrailed.east mating type proteins.epatocyte nuclear factor 1a and HOX proteins.The homeodomain motif is very similar in sequence and structure to domains in a wide range of DNA-binding proteins.ncluding recombinases.yb proteins.ARP response regulators.uman telomeric proteins (hTRF1).aired domain proteins (PAX).east RAP1.entromere-binding proteins CENP-B and ABP-1.ranscriptional regulators (TyrR).raC-type transcriptional activators.nd tetracycline repressor-like proteins (TetR.acR.cdC) .
  IPR009057:Homeodomain-like
Quinoprotein alcohol dehydrogenases are a family of proteins found in methylotrophic or autotrophic bacteria. These quinoproteins use pyrroloquinoline quinone as their prosthetic group. There are three types of alcohol dehydrogenases: type I includes methanol dehydrogenase and ethanol dehydrogenase.ype II includes soluble quinohaemoprotein with a C-terminal containing haem C.nd type III includes quinoprotein alcohol dehydrogenase with a C-terminal cytochrome C domain . These quinoproteins contain an 8-bladed beta-propeller motif.hich is present in the N-terminal domain of quinoprotein alcohol dehydrogenase.thanol dehydrogenase.nd the heavy chain (alpha subunit) of methanol dehydrogenase () .The SSF signature in this entry is currently under review. Please be aware that some of the protein hits may be false positives.
  IPR011047:Quinonprotein alcohol dehydrogenase-like
This family includes inhibitors of proteinases and amylases.uch as trypsin inhibitors () .arboxypeptidase A inhibitors () .nd alpha-amylase inhibitors (AAI) . The proteins display a knottins-like (small inhibitors.oxins.ectins) disulphide-bound fold.ontaining a beta-hairpin with two adjacent disulphides.The SSF signature in this entry is currently under review. Please be aware that some of the protein hits may be false positives.More information about this protein can be found at Protein of the Month: alpha-Amylase .
  IPR011052:Proteinase and amylase inhibitor
IPR001627:Sema 
Evalue:-168.193820026016 
Location:61-489IPR002165:PSI 
Evalue:-5.74472761154175 
Location:518-539IPR011047:Quin_alc_DH_like 
Evalue:0 
Location:830-928IPR011047:Quin_alc_DH_like 
Evalue:0 
Location:1-19
SequencesProtein: SEM6C_HUMAN (930 aa)
mRNA: AB022434 AF339154 NM_030913
Local Annotation
Synapse Ontology
the mechanism by which the restiong potential is held.
sdb:0288 maintain membrane potential  (Evidence:keywords)
KO assignmentK06842
  Level 3 annotation:
    semaphorin 6
  Level 2 annotation:
    CAM ligands
    Axon guidance
Loci Structure (Details)Loci index, Chromosomal location, Length, Possible relational loci clusterExon1: 610 residues, 149370788-149372617Exon2: 34 residues, 149373059-149373155Exon3: 17 residues, 149373500-149373545Exon4: 20 residues, 149373719-149373775Exon5: 28 residues, 149373897-149373975Exon6: 51 residues, 149374262-149374409Exon7: 60 residues, 149374690-149374864Exon8: 53 residues, 149375110-149375263Exon9: 46 residues, 149375547-149375679Exon10: 74 residues, 149375956-149376174Exon11: 31 residues, 149376810-149376899Exon12: 42 residues, 149377085-149377205Exon13: 32 residues, 149377415-149377506Exon14: 36 residues, 149377729-149377831Exon15: 21 residues, 149378524-149378581Exon16: 23 residues, 149378737-149378801Exon17: 40 residues, 149379075-149379190Exon18: 59 residues, 149381603-149381775Exon19: 18 residues, 149383484-149383534Exon20: 10 residues, 149385532-149385557Exon21: 2 residues, -Jump to SEM6C_HUMANExon1: 610 residues, 149370788-149372617Exon2: 17 residues, 149373500-149373545Exon3: 20 residues, 149373719-149373775Exon4: 28 residues, 149373897-149373975Exon5: 51 residues, 149374262-149374409Exon6: 60 residues, 149374690-149374864Exon7: 53 residues, 149375110-149375263Exon8: 46 residues, 149375547-149375679Exon9: 74 residues, 149375956-149376174Exon10: 31 residues, 149376810-149376899Exon11: 42 residues, 149377085-149377205Exon12: 32 residues, 149377415-149377506Exon13: 36 residues, 149377729-149377831Exon14: 21 residues, 149378524-149378581Exon15: 23 residues, 149378737-149378801Exon16: 40 residues, 149379075-149379190Exon17: 59 residues, 149381603-149381775Exon18: 18 residues, 149383484-149383534Exon19: 67 residues, 149385532-149385728Exon20: 2 residues, -Jump to SEM6C_HUMANExon1: 488 residues, 149371156-149372617Exon2: 17 residues, 149373500-149373545Exon3: 20 residues, 149373719-149373775Exon4: 28 residues, 149373897-149373975Exon5: 51 residues, 149374262-149374409Exon6: 60 residues, 149374690-149374864Exon7: 53 residues, 149375110-149375263Exon8: 46 residues, 149375547-149375679Exon9: 75 residues, 149375956-149376176Exon10: 31 residues, 149376812-149376899Exon11: 42 residues, 149377085-149377205Exon12: 32 residues, 149377415-149377506Exon13: 36 residues, 149377729-149377831Exon14: 21 residues, 149378524-149378581Exon15: 23 residues, 149378737-149378801Exon16: 40 residues, 149379075-149379190Exon17: 59 residues, 149381603-149381775Exon18: 18 residues, 149383484-149383534Exon19: 29 residues, 149385532-149385613Exon20: 2 residues, -Jump to SEM6C_HUMAN  
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Loci Cluster (Details)Loci: 2548 149493820-149506576 ~-13K 2556(PSMD4)(+)Loci: 3831 149531036-149566511 ~-35K 2560(PIK4CB)(-)Loci: 2549 149851285-149938183 ~-87K 2579(SNX27)(+)Loci: 3832 150010960-150029541 ~-19K 2590(TDRKH)(-)Loci: 3830 149370788-149385728 ~-15K 2543(SEMA6C)(-)Link out to UCSC