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Protein

Semaphorin-3A

Gene

Sema3a

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Plays a role in growth cones guidance. May function to pattern sensory projections by selectively repelling axons that normally terminate dorsally. Involved in the development of the olfactory system and in neuronal control of puberty (By similarity).By similarity

GO - Molecular functioni

  • chemorepellent activity Source: MGI
  • neuropilin binding Source: BHF-UCL
  • semaphorin receptor binding Source: MGI

GO - Biological processi

  • apoptotic process Source: Ensembl
  • axonal fasciculation Source: MGI
  • axon extension involved in axon guidance Source: BHF-UCL
  • axon guidance Source: MGI
  • axonogenesis involved in innervation Source: BHF-UCL
  • branchiomotor neuron axon guidance Source: ParkinsonsUK-UCL
  • dendrite morphogenesis Source: MGI
  • dichotomous subdivision of terminal units involved in salivary gland branching Source: MGI
  • facial nerve structural organization Source: ParkinsonsUK-UCL
  • facioacoustic ganglion development Source: ParkinsonsUK-UCL
  • gonadotrophin-releasing hormone neuronal migration to the hypothalamus Source: BHF-UCL
  • motor neuron axon guidance Source: ParkinsonsUK-UCL
  • negative chemotaxis Source: MGI
  • negative regulation of axon extension Source: MGI
  • negative regulation of axon extension involved in axon guidance Source: MGI
  • negative regulation of epithelial cell migration Source: MGI
  • negative regulation of neuron projection development Source: MGI
  • nerve development Source: BHF-UCL
  • neural crest cell migration involved in autonomic nervous system development Source: ParkinsonsUK-UCL
  • neural crest cell migration involved in sympathetic nervous system development Source: BHF-UCL
  • neuron migration Source: BHF-UCL
  • olfactory bulb development Source: UniProtKB
  • positive regulation of male gonad development Source: BHF-UCL
  • positive regulation of neuron migration Source: BHF-UCL
  • regulation of axon extension involved in axon guidance Source: UniProtKB
  • regulation of heart rate Source: MGI
  • semaphorin-plexin signaling pathway Source: MGI
  • semaphorin-plexin signaling pathway involved in axon guidance Source: ParkinsonsUK-UCL
  • semaphorin-plexin signaling pathway involved in neuron projection guidance Source: BHF-UCL
  • sympathetic ganglion development Source: BHF-UCL
  • sympathetic neuron projection extension Source: BHF-UCL
  • sympathetic neuron projection guidance Source: BHF-UCL
  • trigeminal ganglion development Source: ParkinsonsUK-UCL
  • trigeminal nerve structural organization Source: ParkinsonsUK-UCL
  • ventral trunk neural crest cell migration Source: ParkinsonsUK-UCL
Complete GO annotation...

Keywords - Molecular functioni

Developmental protein

Keywords - Biological processi

Differentiation, Neurogenesis

Enzyme and pathway databases

ReactomeiR-MMU-399954. Sema3A PAK dependent Axon repulsion.
R-MMU-399955. SEMA3A-Plexin repulsion signaling by inhibiting Integrin adhesion.
R-MMU-399956. CRMPs in Sema3A signaling.

Names & Taxonomyi

Protein namesi
Recommended name:
Semaphorin-3A
Alternative name(s):
Semaphorin III
Short name:
Sema III
Semaphorin-D
Short name:
Sema D
Gene namesi
Name:Sema3a
Synonyms:Semad, SemD
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 5

Organism-specific databases

MGIiMGI:107558. Sema3a.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Secreted

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 20Sequence analysisAdd BLAST20
ChainiPRO_000003230421 – 772Semaphorin-3AAdd BLAST752

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi53N-linked (GlcNAc...)1 Publication1
Disulfide bondi103 ↔ 1141 Publication
Glycosylationi125N-linked (GlcNAc...)1 Publication1
Disulfide bondi132 ↔ 1411 Publication
Disulfide bondi269 ↔ 3811 Publication
Disulfide bondi293 ↔ 3411 Publication
Disulfide bondi517 ↔ 535By similarity
Glycosylationi591N-linked (GlcNAc...)Sequence analysis1
Disulfide bondi650 ↔ 723By similarity

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

MaxQBiO08665.
PaxDbiO08665.
PeptideAtlasiO08665.
PRIDEiO08665.

PTM databases

iPTMnetiO08665.
PhosphoSitePlusiO08665.

Expressioni

Developmental stagei

Expressed early in embryonic development (E11) in distinct regions of the neuroectoderm and mesoderm. Expression became more extensive at later stages.

Gene expression databases

BgeeiENSMUSG00000028883.
ExpressionAtlasiO08665. baseline and differential.
GenevisibleiO08665. MM.

Interactioni

Subunit structurei

Interacts with PXND1.1 Publication

GO - Molecular functioni

  • neuropilin binding Source: BHF-UCL
  • semaphorin receptor binding Source: MGI

Protein-protein interaction databases

BioGridi203161. 2 interactors.
DIPiDIP-59997N.
IntActiO08665. 1 interactor.
STRINGi10090.ENSMUSP00000030714.

Structurei

Secondary structure

1772
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi31 – 34Combined sources4
Helixi36 – 40Combined sources5
Turni41 – 43Combined sources3
Beta strandi46 – 48Combined sources3
Beta strandi59 – 63Combined sources5
Turni64 – 67Combined sources4
Beta strandi68 – 74Combined sources7
Beta strandi76 – 83Combined sources8
Beta strandi87 – 92Combined sources6
Helixi97 – 105Combined sources9
Turni110 – 113Combined sources4
Beta strandi117 – 123Combined sources7
Beta strandi125 – 133Combined sources9
Beta strandi136 – 138Combined sources3
Beta strandi140 – 145Combined sources6
Beta strandi148 – 151Combined sources4
Beta strandi156 – 164Combined sources9
Turni166 – 168Combined sources3
Beta strandi171 – 175Combined sources5
Beta strandi178 – 182Combined sources5
Beta strandi185 – 191Combined sources7
Beta strandi199 – 208Combined sources10
Turni218 – 220Combined sources3
Beta strandi225 – 232Combined sources8
Beta strandi235 – 237Combined sources3
Helixi238 – 240Combined sources3
Beta strandi242 – 250Combined sources9
Beta strandi261 – 269Combined sources9
Beta strandi275 – 280Combined sources6
Beta strandi287 – 291Combined sources5
Beta strandi307 – 314Combined sources8
Beta strandi323 – 329Combined sources7
Beta strandi333 – 335Combined sources3
Beta strandi338 – 343Combined sources6
Helixi345 – 352Combined sources8
Beta strandi356 – 358Combined sources3
Beta strandi384 – 387Combined sources4
Helixi392 – 394Combined sources3
Helixi397 – 404Combined sources8
Beta strandi408 – 411Combined sources4
Helixi416 – 418Combined sources3
Beta strandi421 – 429Combined sources9
Beta strandi431 – 440Combined sources10
Beta strandi445 – 453Combined sources9
Beta strandi458 – 462Combined sources5
Beta strandi466 – 468Combined sources3
Beta strandi478 – 480Combined sources3
Beta strandi483 – 485Combined sources3
Beta strandi491 – 495Combined sources5
Turni496 – 499Combined sources4
Beta strandi500 – 507Combined sources8
Beta strandi509 – 514Combined sources6
Helixi517 – 519Combined sources3
Helixi524 – 529Combined sources6
Beta strandi539 – 541Combined sources3
Turni564 – 566Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1Q47X-ray2.80A/B26-520[»]
4GZ8X-ray3.30A/B21-569[»]
4GZAX-ray7.00G21-555[»]
ProteinModelPortaliO08665.
SMRiO08665.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO08665.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini31 – 514SemaPROSITE-ProRule annotationAdd BLAST484
Domaini579 – 665Ig-like C2-typeAdd BLAST87

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi728 – 770Arg/Lys-rich (basic)Add BLAST43

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

eggNOGiKOG3611. Eukaryota.
ENOG410XQZC. LUCA.
GeneTreeiENSGT00760000118854.
HOGENOMiHOG000039964.
HOVERGENiHBG055071.
InParanoidiO08665.
KOiK06840.
OMAiREPTTIS.
OrthoDBiEOG091G01W0.
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. PSI.
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.
SSF48726. SSF48726. 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.

O08665-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGWFTGIACL FWGVLLTARA NYANGKNNVP RLKLSYKEML ESNNVITFNG
60 70 80 90 100
LANSSSYHTF LLDEERSRLY VGAKDHIFSF NLVNIKDFQK IVWPVSYTRR
110 120 130 140 150
DECKWAGKDI LKECANFIKV LEAYNQTHLY 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 DLEEILLEEM TVFREPTTIS AMELSTKQQQ
510 520 530 540 550
LYIGSTAGVA QLPLHRCDIY GKACAECCLA RDPYCAWDGS SCSRYFPTAK
560 570 580 590 600
RRTRRQDIRN GDPLTHCSDL QHHDNHHGPS LEERIIYGVE NSSTFLECSP
610 620 630 640 650
KSQRALVYWQ FQRRNEDRKE EIRMGDHIIR TEQGLLLRSL QKKDSGNYLC
660 670 680 690 700
HAVEHGFMQT LLKVTLEVID TEHLEELLHK DDDGDGSKIK EMSSSMTPSQ
710 720 730 740 750
KVWYRDFMQL INHPNLNTMD EFCEQVWKRD RKQRRQRPGH SQGSSNKWKH
760 770
MQESKKGRNR RTHEFERAPR SV
Length:772
Mass (Da):88,813
Last modified:July 27, 2011 - v2
Checksum:iC6533FF007018D0C
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti193D → N in AAA73934 (PubMed:7748562).Curated1
Sequence conflicti207H → D in CAA59985 (PubMed:7748561).Curated1
Sequence conflicti253D → G in CAA59985 (PubMed:7748561).Curated1
Sequence conflicti352F → L in AAA73934 (PubMed:7748562).Curated1
Sequence conflicti403A → G in CAA59985 (PubMed:7748561).Curated1
Sequence conflicti475I → V in CAA59985 (PubMed:7748561).Curated1
Sequence conflicti475I → V in BAA19773 (PubMed:9331345).Curated1
Sequence conflicti475I → V in AAL77611 (Ref. 3) Curated1
Sequence conflicti475I → V in AAH57588 (PubMed:15489334).Curated1
Sequence conflicti475I → V in AAH90844 (PubMed:15489334).Curated1
Sequence conflicti475I → V in AAA73934 (PubMed:7748562).Curated1
Sequence conflicti571 – 572QH → ED in CAA59985 (PubMed:7748561).Curated2
Sequence conflicti616 – 620EDRKE → RRSKR in CAA59985 (PubMed:7748561).Curated5
Sequence conflicti623R → K in AAA73934 (PubMed:7748562).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X85993 mRNA. Translation: CAA59985.1.
D85028 mRNA. Translation: BAA19773.1.
L41541 mRNA. Translation: AAL77611.1.
AC022368 Genomic DNA. No translation available.
AC109165 Genomic DNA. No translation available.
AC121125 Genomic DNA. No translation available.
AC121841 Genomic DNA. No translation available.
AC159971 Genomic DNA. No translation available.
BC057588 mRNA. Translation: AAH57588.1.
BC090844 mRNA. Translation: AAH90844.1.
L40484 mRNA. Translation: AAA73934.1.
CCDSiCCDS19092.1.
PIRiI48747.
I58169.
RefSeqiNP_001230001.1. NM_001243072.1.
NP_001230002.1. NM_001243073.1.
NP_033178.2. NM_009152.4.
XP_006503620.1. XM_006503557.3.
XP_006503621.1. XM_006503558.3.
XP_006503622.1. XM_006503559.1.
XP_011238967.1. XM_011240665.2.
UniGeneiMm.372039.
Mm.483774.

Genome annotation databases

EnsembliENSMUST00000030714; ENSMUSP00000030714; ENSMUSG00000028883.
ENSMUST00000095012; ENSMUSP00000092621; ENSMUSG00000028883.
GeneIDi20346.
KEGGimmu:20346.
UCSCiuc008wmb.3. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X85993 mRNA. Translation: CAA59985.1.
D85028 mRNA. Translation: BAA19773.1.
L41541 mRNA. Translation: AAL77611.1.
AC022368 Genomic DNA. No translation available.
AC109165 Genomic DNA. No translation available.
AC121125 Genomic DNA. No translation available.
AC121841 Genomic DNA. No translation available.
AC159971 Genomic DNA. No translation available.
BC057588 mRNA. Translation: AAH57588.1.
BC090844 mRNA. Translation: AAH90844.1.
L40484 mRNA. Translation: AAA73934.1.
CCDSiCCDS19092.1.
PIRiI48747.
I58169.
RefSeqiNP_001230001.1. NM_001243072.1.
NP_001230002.1. NM_001243073.1.
NP_033178.2. NM_009152.4.
XP_006503620.1. XM_006503557.3.
XP_006503621.1. XM_006503558.3.
XP_006503622.1. XM_006503559.1.
XP_011238967.1. XM_011240665.2.
UniGeneiMm.372039.
Mm.483774.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1Q47X-ray2.80A/B26-520[»]
4GZ8X-ray3.30A/B21-569[»]
4GZAX-ray7.00G21-555[»]
ProteinModelPortaliO08665.
SMRiO08665.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi203161. 2 interactors.
DIPiDIP-59997N.
IntActiO08665. 1 interactor.
STRINGi10090.ENSMUSP00000030714.

PTM databases

iPTMnetiO08665.
PhosphoSitePlusiO08665.

Proteomic databases

MaxQBiO08665.
PaxDbiO08665.
PeptideAtlasiO08665.
PRIDEiO08665.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000030714; ENSMUSP00000030714; ENSMUSG00000028883.
ENSMUST00000095012; ENSMUSP00000092621; ENSMUSG00000028883.
GeneIDi20346.
KEGGimmu:20346.
UCSCiuc008wmb.3. mouse.

Organism-specific databases

CTDi10371.
MGIiMGI:107558. Sema3a.

Phylogenomic databases

eggNOGiKOG3611. Eukaryota.
ENOG410XQZC. LUCA.
GeneTreeiENSGT00760000118854.
HOGENOMiHOG000039964.
HOVERGENiHBG055071.
InParanoidiO08665.
KOiK06840.
OMAiREPTTIS.
OrthoDBiEOG091G01W0.
TreeFamiTF316102.

Enzyme and pathway databases

ReactomeiR-MMU-399954. Sema3A PAK dependent Axon repulsion.
R-MMU-399955. SEMA3A-Plexin repulsion signaling by inhibiting Integrin adhesion.
R-MMU-399956. CRMPs in Sema3A signaling.

Miscellaneous databases

EvolutionaryTraceiO08665.
PROiO08665.
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000028883.
ExpressionAtlasiO08665. baseline and differential.
GenevisibleiO08665. MM.

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. PSI.
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.
SSF48726. SSF48726. 1 hit.
PROSITEiPS50835. IG_LIKE. 1 hit.
PS51004. SEMA. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiSEM3A_MOUSE
AccessioniPrimary (citable) accession number: O08665
Secondary accession number(s): E9QK85
, Q5BL08, Q62180, Q62215
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: July 27, 2011
Last modified: November 30, 2016
This is version 151 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

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 one 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.