Skip Header

Contribute Send feedback
Read comments (?) or add your own

Q63548 (SEM3A_RAT) Reviewed, UniProtKB/Swiss-Prot

Last modified May 1, 2013. Version 105. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (1) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Semaphorin-3A
Alternative name(s):
Semaphorin III
Short name=Sema III
Gene names
Name:Sema3a
OrganismRattus norvegicus (Rat) [Reference proteome]
Taxonomic identifier10116 [NCBI]
Taxonomic lineageEukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Rattus

Protein attributes

Sequence length772 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at transcript level

General annotation (Comments)

Function

May be involved in guiding growing axons towards their targets by forming a molecular boundary that instructs axons to engage in the formation of specific nerve tracts. Binds to neuropilin. Involved in the development of the olfactory system and in neuronal control of puberty By similarity.

Subunit structure

Interacts with PLXND1 By similarity.

Subcellular location

Secreted By similarity.

Developmental stage

At E11, expression was restricted to the olfactory pit, the basal and rostral surface of the telencephalic vesicle, the eye anlage, the epithelium of Rathke pouch, and somites. At later developmental stages, it was widely distributed in neuronal as well as in mesenchymal and epithelial structures outside the nervous system. After birth, mesenchymal levels decreased rapidly and expression became restricted to specific sets of neurons in the CNS. In the mature CNS, it is detectable in mitral cells, neurons of the accessory bulb and cerebral cortex, cerebellar Purkinje cells, as well as a subset of cranial and spinal motoneurons.

Domain

Strong binding to neuropilin is mediated by the carboxy third of the protein.

Sequence similarities

Belongs to the semaphorin family.

Contains 1 Ig-like C2-type (immunoglobulin-like) domain.

Contains 1 PSI domain.

Contains 1 Sema domain.

Ontologies

Keywords
   Biological processDifferentiation
Neurogenesis
   Cellular componentSecreted
   DomainImmunoglobulin domain
Signal
   Molecular functionDevelopmental protein
   PTMDisulfide bond
Glycoprotein
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processapoptotic process

Inferred from mutant phenotype PubMed 12376549. Source: RGD

axon guidance

Inferred from genetic interaction PubMed 21068336. Source: MGI

axonal fasciculation

Inferred from electronic annotation. Source: Compara

dendrite morphogenesis

Inferred from electronic annotation. Source: Compara

dichotomous subdivision of terminal units involved in salivary gland branching

Inferred from electronic annotation. Source: Compara

negative regulation of axon extension

Inferred from direct assay PubMed 12077190. Source: RGD

negative regulation of axon extension involved in axon guidance

Inferred from electronic annotation. Source: Compara

negative regulation of epithelial cell migration

Inferred from electronic annotation. Source: Compara

olfactory bulb development

Inferred from sequence or structural similarity. Source: UniProtKB

regulation of heart rate

Inferred from electronic annotation. Source: Compara

   Cellular_componentaxon

Inferred from direct assay PubMed 15866045. Source: RGD

dendrite

Inferred from direct assay PubMed 15866045. Source: RGD

extracellular space

Traceable author statement PubMed 12077190. Source: RGD

membrane

Inferred from electronic annotation. Source: InterPro

   Molecular_functionchemorepellent activity

Inferred from electronic annotation. Source: Compara

receptor activity

Inferred from electronic annotation. Source: InterPro

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Signal peptide1 – 2020 Potential
Chain21 – 772752Semaphorin-3A
PRO_0000032305

Regions

Domain31 – 514484Sema
Domain577 – 66589Ig-like C2-type
Compositional bias728 – 77043Arg/Lys-rich (basic)

Amino acid modifications

Glycosylation531N-linked (GlcNAc...) Potential
Glycosylation1251N-linked (GlcNAc...) Potential
Glycosylation5911N-linked (GlcNAc...) Potential
Disulfide bond103 ↔ 114 By similarity
Disulfide bond132 ↔ 141 By similarity
Disulfide bond269 ↔ 381 By similarity
Disulfide bond293 ↔ 341 By similarity
Disulfide bond517 ↔ 535 By similarity
Disulfide bond650 ↔ 723 By similarity

Sequences

Sequence LengthMass (Da)Tools
Q63548 [UniParc].

Last modified November 1, 1996. Version 1.
Checksum: 240907812FF9F2D2

FASTA77288,808
        10         20         30         40         50         60 
MGWFTGIACL FWGILLTARA NYANGKNNVP RLKLSYKEML ESNNVITFNG LANSSSYHTF 

        70         80         90        100        110        120 
LLDEERSRLY VGAKDHIFSF NLVNIKDFQK IVWPVSYTRR DECKWAGKDI LKECANFIKV 

       130        140        150        160        170        180 
LKAYNQTHLY ACGTGAFHPI CTYIEVGHHP EDNIFKLQDS HFENGRGKSP YDPKLLTASL 

       190        200        210        220        230        240 
LIDGELYSGT AADFMGRDFA IFRTLGHHHP IRTEQHDSRW LNDPRFISAH LIPESDNPED 

       250        260        270        280        290        300 
DKVYFFFREN AIDGEHSGKA THARIGQICK NDFGGHRSLV NKWTTFLKAR LICSVPGPNG 

       310        320        330        340        350        360 
IDTHFDELQD VFLMNSKDPK NPIVYGVFTT SSNIFKGSAV CMYSMSDVRR VFLGPYAHRD 

       370        380        390        400        410        420 
GPNYQWVPYQ GRVPYPRPGT CPSKTFGGFD STKDLPDDVI TFARSHPAMY NPVFPINNRP 

       430        440        450        460        470        480 
IMIKTDVNYQ FTQIVVDRVD AEDGQYDVMF IGTDVGTVLK VVSVPKETWH DLEEVLLEEM 

       490        500        510        520        530        540 
TVFREPTTIS AMELSTKQQQ LYIGSTAGVA QLPLHRCDIY GKACAECCLA RDPYCAWDGS 

       550        560        570        580        590        600 
SCSRYFPTAK RRTRRQDIRN GDPLTHCSDL QHHDNHHGHS LEERIIYGVE NSSTFLECSP 

       610        620        630        640        650        660 
KSQRALVYWQ FQRRNEDRKE EIRVGDHIIR TEQGLLLRSL QKKDSGNYLC HAVEHGFMQT 

       670        680        690        700        710        720 
LLKVTLEVID TEHLEELLHK DDDGDGSKTK EMSSSMTPSQ KVWYRDFMQL INHPNLNTMD 

       730        740        750        760        770 
EFCEQVWKRD RKQRRQRPGH SQGSSNKWKH MQESKKGRNR RTHEFERAPR SV

« Hide

References

[1]"Anatomy of rat semaphorin III/collapsin-1 mRNA expression and relationship to developing nerve tracts during neuroembryogenesis."
Giger R.J., Wolfer D.P., De Wit G.M.J., Verhaagen J.
J. Comp. Neurol. 375:378-392(1996) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA].
Strain: Wistar.
Tissue: Brain.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ		X95286 mRNA. Translation: CAA64607.1.
IPIIPI00210066.
RefSeqNP_059006.1. NM_017310.1.
UniGeneRn.44410.

3D structure databases

ProteinModelPortalQ63548.
SMRQ63548. Positions 26-520.
ModBaseSearch...

Protein-protein interaction databases

STRING10116.ENSRNOP00000036472.

Proteomic databases

PaxDbQ63548.
PRIDEQ63548.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENSRNOT00000034692; ENSRNOP00000036472; ENSRNOG00000023337.
GeneID29751.
KEGGrno:29751.

Organism-specific databases

CTD10371.
RGD3657. Sema3a.

Phylogenomic databases

eggNOGNOG305380.
GeneTreeENSGT00560000076660.
HOGENOMHOG000039964.
HOVERGENHBG055071.
InParanoidQ63548.
KOK06840.
OMACTYIEVG.
OrthoDBEOG4ZPDTM.

Gene expression databases

GenevestigatorQ63548.
GermOnlineENSRNOG00000023337. Rattus norvegicus.

Family and domain databases

Gene3D2.130.10.10. 1 hit.
2.60.40.10. 1 hit.
InterProIPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003599. Ig_sub.
IPR003659. Plexin-like.
IPR016201. Plexin-like_fold.
IPR027231. Semaphorin.
IPR001627. Semaphorin/CD100_Ag.
IPR015943. WD40/YVTN_repeat-like_dom.
[Graphical view]
PANTHERPTHR11036. PTHR11036. 1 hit.
PfamPF01403. Sema. 1 hit.
[Graphical view]
SMARTSM00409. IG. 1 hit.
SM00423. PSI. 1 hit.
SM00630. Sema. 1 hit.
[Graphical view]
SUPFAMSSF103575. Plexin-like_fold. 1 hit.
SSF101912. Sema. 1 hit.
PROSITEPS50835. IG_LIKE. 1 hit.
PS51004. SEMA. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

NextBio610281.

Entry information

Entry nameSEM3A_RAT
AccessionPrimary (citable) accession number: Q63548
Entry history
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: November 1, 1996
Last modified: May 1, 2013
This is version 105 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents