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Protein

Semaphorin-3A

Gene

Sema3a

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at transcript leveli

Functioni

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).By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Developmental protein

Keywords - Biological processi

Differentiation, Neurogenesis

Enzyme and pathway databases

ReactomeiREACT_301102. CRMPs in Sema3A signaling.
REACT_346770. SEMA3A-Plexin repulsion signaling by inhibiting Integrin adhesion.
REACT_347274. Sema3A PAK dependent Axon repulsion.

Names & Taxonomyi

Protein namesi
Recommended name:
Semaphorin-3A
Alternative name(s):
Semaphorin III
Short name:
Sema III
Gene namesi
Name:Sema3a
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
ProteomesiUP000002494 Componenti: Chromosome 4

Organism-specific databases

RGDi3657. Sema3a.

Subcellular locationi

GO - Cellular componenti

  • axon Source: RGD
  • dendrite Source: RGD
  • extracellular space Source: RGD
  • membrane Source: InterPro
Complete GO annotation...

Keywords - Cellular componenti

Secreted

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2020Sequence AnalysisAdd
BLAST
Chaini21 – 772752Semaphorin-3APRO_0000032305Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi53 – 531N-linked (GlcNAc...)Sequence Analysis
Disulfide bondi103 ↔ 114By similarity
Glycosylationi125 – 1251N-linked (GlcNAc...)Sequence Analysis
Disulfide bondi132 ↔ 141By similarity
Disulfide bondi269 ↔ 381By similarity
Disulfide bondi293 ↔ 341By similarity
Disulfide bondi517 ↔ 535By similarity
Glycosylationi591 – 5911N-linked (GlcNAc...)Sequence Analysis
Disulfide bondi650 ↔ 723By similarity

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

PaxDbiQ63548.
PRIDEiQ63548.

Expressioni

Developmental stagei

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.

Gene expression databases

GenevestigatoriQ63548.

Interactioni

Subunit structurei

Interacts with PLXND1.By similarity

Protein-protein interaction databases

IntActiQ63548. 1 interaction.
MINTiMINT-1542099.
STRINGi10116.ENSRNOP00000036472.

Structurei

3D structure databases

ProteinModelPortaliQ63548.
SMRiQ63548. Positions 26-520.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini31 – 514484SemaPROSITE-ProRule annotationAdd
BLAST
Domaini577 – 66589Ig-like C2-typeAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi728 – 77043Arg/Lys-rich (basic)Add
BLAST

Domaini

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

Sequence similaritiesi

Belongs to the semaphorin family.Curated
Contains 1 PSI domain.Curated
Contains 1 Sema domain.PROSITE-ProRule annotation

Keywords - Domaini

Immunoglobulin domain, Signal

Phylogenomic databases

eggNOGiNOG305380.
GeneTreeiENSGT00760000118854.
HOGENOMiHOG000039964.
HOVERGENiHBG055071.
InParanoidiQ63548.
KOiK06840.
OMAiREPTTIS.
OrthoDBiEOG7VMP4F.
PhylomeDBiQ63548.
TreeFamiTF316102.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
2.60.40.10. 1 hit.
InterProiIPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003599. Ig_sub.
IPR016201. Plexin-like_fold.
IPR001627. Semap_dom.
IPR027231. Semaphorin.
IPR015943. WD40/YVTN_repeat-like_dom.
[Graphical view]
PANTHERiPTHR11036. PTHR11036. 1 hit.
PfamiPF01403. Sema. 1 hit.
[Graphical view]
SMARTiSM00409. IG. 1 hit.
SM00423. PSI. 1 hit.
SM00630. Sema. 1 hit.
[Graphical view]
SUPFAMiSSF101912. SSF101912. 1 hit.
SSF103575. SSF103575. 1 hit.
PROSITEiPS50835. IG_LIKE. 1 hit.
PS51004. SEMA. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q63548-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGWFTGIACL FWGILLTARA NYANGKNNVP RLKLSYKEML ESNNVITFNG
60 70 80 90 100
LANSSSYHTF LLDEERSRLY VGAKDHIFSF NLVNIKDFQK IVWPVSYTRR
110 120 130 140 150
DECKWAGKDI LKECANFIKV LKAYNQTHLY ACGTGAFHPI CTYIEVGHHP
160 170 180 190 200
EDNIFKLQDS HFENGRGKSP YDPKLLTASL LIDGELYSGT AADFMGRDFA
210 220 230 240 250
IFRTLGHHHP IRTEQHDSRW LNDPRFISAH LIPESDNPED DKVYFFFREN
260 270 280 290 300
AIDGEHSGKA THARIGQICK NDFGGHRSLV NKWTTFLKAR LICSVPGPNG
310 320 330 340 350
IDTHFDELQD VFLMNSKDPK NPIVYGVFTT SSNIFKGSAV CMYSMSDVRR
360 370 380 390 400
VFLGPYAHRD GPNYQWVPYQ GRVPYPRPGT CPSKTFGGFD STKDLPDDVI
410 420 430 440 450
TFARSHPAMY NPVFPINNRP IMIKTDVNYQ FTQIVVDRVD AEDGQYDVMF
460 470 480 490 500
IGTDVGTVLK VVSVPKETWH DLEEVLLEEM TVFREPTTIS AMELSTKQQQ
510 520 530 540 550
LYIGSTAGVA QLPLHRCDIY GKACAECCLA RDPYCAWDGS SCSRYFPTAK
560 570 580 590 600
RRTRRQDIRN GDPLTHCSDL QHHDNHHGHS LEERIIYGVE NSSTFLECSP
610 620 630 640 650
KSQRALVYWQ FQRRNEDRKE EIRVGDHIIR TEQGLLLRSL QKKDSGNYLC
660 670 680 690 700
HAVEHGFMQT LLKVTLEVID TEHLEELLHK DDDGDGSKTK EMSSSMTPSQ
710 720 730 740 750
KVWYRDFMQL INHPNLNTMD EFCEQVWKRD RKQRRQRPGH SQGSSNKWKH
760 770
MQESKKGRNR RTHEFERAPR SV
Length:772
Mass (Da):88,808
Last modified:November 1, 1996 - v1
Checksum:i240907812FF9F2D2
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X95286 mRNA. Translation: CAA64607.1.
RefSeqiNP_059006.1. NM_017310.1.
XP_006236051.1. XM_006235989.2.
XP_006236052.1. XM_006235990.2.
XP_008760924.1. XM_008762702.1.
UniGeneiRn.44410.

Genome annotation databases

EnsembliENSRNOT00000034692; ENSRNOP00000036472; ENSRNOG00000023337.
GeneIDi29751.
KEGGirno:29751.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X95286 mRNA. Translation: CAA64607.1.
RefSeqiNP_059006.1. NM_017310.1.
XP_006236051.1. XM_006235989.2.
XP_006236052.1. XM_006235990.2.
XP_008760924.1. XM_008762702.1.
UniGeneiRn.44410.

3D structure databases

ProteinModelPortaliQ63548.
SMRiQ63548. Positions 26-520.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiQ63548. 1 interaction.
MINTiMINT-1542099.
STRINGi10116.ENSRNOP00000036472.

Proteomic databases

PaxDbiQ63548.
PRIDEiQ63548.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000034692; ENSRNOP00000036472; ENSRNOG00000023337.
GeneIDi29751.
KEGGirno:29751.

Organism-specific databases

CTDi10371.
RGDi3657. Sema3a.

Phylogenomic databases

eggNOGiNOG305380.
GeneTreeiENSGT00760000118854.
HOGENOMiHOG000039964.
HOVERGENiHBG055071.
InParanoidiQ63548.
KOiK06840.
OMAiREPTTIS.
OrthoDBiEOG7VMP4F.
PhylomeDBiQ63548.
TreeFamiTF316102.

Enzyme and pathway databases

ReactomeiREACT_301102. CRMPs in Sema3A signaling.
REACT_346770. SEMA3A-Plexin repulsion signaling by inhibiting Integrin adhesion.
REACT_347274. Sema3A PAK dependent Axon repulsion.

Miscellaneous databases

NextBioi610281.
PROiQ63548.

Gene expression databases

GenevestigatoriQ63548.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
2.60.40.10. 1 hit.
InterProiIPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003599. Ig_sub.
IPR016201. Plexin-like_fold.
IPR001627. Semap_dom.
IPR027231. Semaphorin.
IPR015943. WD40/YVTN_repeat-like_dom.
[Graphical view]
PANTHERiPTHR11036. PTHR11036. 1 hit.
PfamiPF01403. Sema. 1 hit.
[Graphical view]
SMARTiSM00409. IG. 1 hit.
SM00423. PSI. 1 hit.
SM00630. Sema. 1 hit.
[Graphical view]
SUPFAMiSSF101912. SSF101912. 1 hit.
SSF103575. SSF103575. 1 hit.
PROSITEiPS50835. IG_LIKE. 1 hit.
PS51004. SEMA. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  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.

Entry informationi

Entry nameiSEM3A_RAT
AccessioniPrimary (citable) accession number: Q63548
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: November 1, 1996
Last modified: April 1, 2015
This is version 120 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.