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Q62178

- SEM4A_MOUSE

UniProt

Q62178 - SEM4A_MOUSE

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Protein
Semaphorin-4A
Gene
Sema4a, Semab, SemB
Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

Functioni

Cell surface receptor for PLXNB1, PLXNB2, PLXNB3 and PLXND1 that plays an important role in cell-cell signaling. Plays a role in priming antigen-specific T-cells, promotes differentiation of Th1 T-helper cells, and thereby contributes to adaptive immunity. Promotes phosphorylation of TIMD2. Inhibits angiogenesis. Promotes axon growth cone collapse. Inhibits axonal extension by providing local signals to specify territories inaccessible for growing axons.4 Publications

GO - Molecular functioni

  1. receptor activity Source: InterPro

GO - Biological processi

  1. T cell differentiation involved in immune response Source: UniProtKB
  2. T-helper 1 cell differentiation Source: UniProtKB
  3. angiogenesis Source: UniProtKB-KW
  4. axonogenesis Source: UniProtKB
  5. negative regulation of angiogenesis Source: UniProtKB
  6. regulation of cell shape Source: UniProtKB
  7. regulation of endothelial cell migration Source: UniProtKB
  8. semaphorin-plexin signaling pathway Source: UniProtKB
Complete GO annotation...

Keywords - Molecular functioni

Developmental protein

Keywords - Biological processi

Adaptive immunity, Angiogenesis, Differentiation, Immunity, Neurogenesis

Names & Taxonomyi

Protein namesi
Recommended name:
Semaphorin-4A
Alternative name(s):
Semaphorin-B
Short name:
Sema B
Gene namesi
Name:Sema4a
Synonyms:Semab, SemB
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589: Chromosome 3

Organism-specific databases

MGIiMGI:107560. Sema4a.

Subcellular locationi

Cell membrane; Single-pass type I membrane protein 4 Publications

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini33 – 682650Extracellular Reviewed prediction
Add
BLAST
Transmembranei683 – 70321Helical; Reviewed prediction
Add
BLAST
Topological domaini704 – 76057Cytoplasmic Reviewed prediction
Add
BLAST

GO - Cellular componenti

  1. integral component of membrane Source: UniProtKB-KW
  2. plasma membrane Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

Pathology & Biotechi

Disruption phenotypei

Results are contradictory; one study (1 Publication) finds no visible phenotype; mice are born at the expected Mendelian ratio and are fertile, but they present defects in T-cell differentiation and in T-cell responses to antigens. According to another publication (1 Publication) gene disruption leads to degeneration of photoreceptor cells in the retina within the first month of life.3 Publications

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 3232 Reviewed prediction
Add
BLAST
Chaini33 – 760728Semaphorin-4A
PRO_0000032323Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi113 ↔ 124 By similarity
Glycosylationi120 – 1201N-linked (GlcNAc...) Reviewed prediction
Glycosylationi135 – 1351N-linked (GlcNAc...) Reviewed prediction
Disulfide bondi142 ↔ 151 By similarity
Disulfide bondi269 ↔ 379 By similarity
Disulfide bondi293 ↔ 339 By similarity
Glycosylationi496 – 4961N-linked (GlcNAc...) Reviewed prediction
Disulfide bondi497 ↔ 514 By similarity
Disulfide bondi506 ↔ 523 By similarity
Disulfide bondi579 ↔ 623 By similarity
Glycosylationi606 – 6061N-linked (GlcNAc...) Reviewed prediction

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

MaxQBiQ62178.
PaxDbiQ62178.
PRIDEiQ62178.

PTM databases

PhosphoSiteiQ62178.

Expressioni

Developmental stagei

Expressed from day 10 in the embryo. Low levels found between days 10-12. Expression peaks on day 13 with moderate levels from then until birth.

Gene expression databases

ArrayExpressiQ62178.
BgeeiQ62178.
GenevestigatoriQ62178.

Interactioni

Subunit structurei

Interacts with PLXNB1, PLXNB2, PLXNB3 and PLXND1. Probable ligand for TIMD2.3 Publications

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000029700.

Structurei

3D structure databases

ProteinModelPortaliQ62178.
SMRiQ62178. Positions 37-627.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini36 – 494459Sema
Add
BLAST
Domaini496 – 54752PSI
Add
BLAST
Domaini572 – 63059Ig-like C2-type
Add
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi609 – 6124Poly-Leu

Sequence similaritiesi

Belongs to the semaphorin family.
Contains 1 PSI domain.
Contains 1 Sema domain.

Keywords - Domaini

Immunoglobulin domain, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiNOG287504.
GeneTreeiENSGT00560000076864.
HOGENOMiHOG000116087.
HOVERGENiHBG061165.
KOiK06521.
OMAiFAFSPAC.
OrthoDBiEOG7H791Q.
PhylomeDBiQ62178.
TreeFamiTF316102.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
InterProiIPR016201. Plexin-like_fold.
IPR002165. Plexin_repeat.
IPR001627. Semap_dom.
IPR027231. Semaphorin.
IPR015943. WD40/YVTN_repeat-like_dom.
[Graphical view]
PANTHERiPTHR11036. PTHR11036. 1 hit.
PfamiPF01437. PSI. 1 hit.
PF01403. Sema. 1 hit.
[Graphical view]
SMARTiSM00423. PSI. 1 hit.
SM00630. Sema. 1 hit.
[Graphical view]
SUPFAMiSSF101912. SSF101912. 1 hit.
SSF103575. SSF103575. 1 hit.
PROSITEiPS51004. SEMA. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

Q62178-1 [UniParc]FASTAAdd to Basket

« Hide

MALPSLGQDS WSLLRVFFFQ LFLLPSLPPA SGTGGQGPMP RVKYHAGDGH    50
RALSFFQQKG LRDFDTLLLS DDGNTLYVGA REAVLALNIQ NPGIPRLKNM 100
IPWPASERKK TECAFKKKSN ETQCFNFIRV LVSYNATHLY ACGTFAFSPA 150
CTFIELQDSL LLPILIDKVM DGKGQSPFDP VHKHTAVLVD GMLYSGTMNN 200
FLGSEPILMR TLGSQPVLKT DIFLRWLHAD ASFVAAIPST QVVYFFFEET 250
ASEFDFFEEL YISRVAQVCK NDVGGEKLLQ KKWTTFLKAQ LLCAQPGQLP 300
FNIIRHAVLL PADSPSVSRI YAVFTSQWQV GGTRSSAVCA FSLTDIERVF 350
KGKYKELNKE TSRWTTYRGS EVSPRPGSCS MGPSSDKALT FMKDHFLMDE 400
HVVGTPLLVK SGVEYTRLAV ESARGLDGSS HVVMYLGTST GSLHKAVVPQ 450
DSSAYLVEEI QLSPDSEPVR NLQLAPAQGA VFAGFSGGIW RVPRANCSVY 500
ESCVDCVLAR DPHCAWDPES RLCSLLSGST KPWKQDMERG NPEWVCTRGP 550
MARSPRRQSP PQLIKEVLTV PNSILELPCP HLSALASYHW SHGRAKISEA 600
SATVYNGSLL LLPQDGVGGL YQCVATENGY SYPVVSYWVD SQDQPLALDP 650
ELAGVPRERV QVPLTRVGGG ASMAAQRSYW PHFLIVTVLL AIVLLGVLTL 700
LLASPLGALR ARGKVQGCGM LPPREKAPLS RDQHLQPSKD HRTSASDVDA 750
DNNHLGAEVA 760
Length:760
Mass (Da):83,421
Last modified:July 27, 2011 - v2
Checksum:iC13BD31BD90BE3D9
GO

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti83 – 831A → T in CAA59983. 1 Publication
Sequence conflicti178 – 1858FDPVHKHT → LTLFTSTQ in CAA59983. 1 Publication
Sequence conflicti215 – 2151Q → H in CAA59983. 1 Publication
Sequence conflicti442 – 4421S → P in CAA59983. 1 Publication
Sequence conflicti578 – 5781P → R in CAA59983. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X85991 mRNA. Translation: CAA59983.1.
AC102388 Genomic DNA. No translation available.
CH466547 Genomic DNA. Translation: EDL15277.1.
CH466547 Genomic DNA. Translation: EDL15278.1.
CH466547 Genomic DNA. Translation: EDL15279.1.
CCDSiCCDS17475.1.
PIRiI48745.
RefSeqiNP_001156961.1. NM_001163489.1.
NP_001156962.1. NM_001163490.1.
NP_001156963.1. NM_001163491.1.
NP_038686.3. NM_013658.3.
XP_006501252.1. XM_006501189.1.
UniGeneiMm.439752.

Genome annotation databases

EnsembliENSMUST00000029700; ENSMUSP00000029700; ENSMUSG00000028064.
ENSMUST00000165898; ENSMUSP00000128510; ENSMUSG00000028064.
ENSMUST00000166237; ENSMUSP00000125909; ENSMUSG00000028064.
ENSMUST00000169222; ENSMUSP00000128887; ENSMUSG00000028064.
GeneIDi20351.
KEGGimmu:20351.
UCSCiuc008pvg.2. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X85991 mRNA. Translation: CAA59983.1 .
AC102388 Genomic DNA. No translation available.
CH466547 Genomic DNA. Translation: EDL15277.1 .
CH466547 Genomic DNA. Translation: EDL15278.1 .
CH466547 Genomic DNA. Translation: EDL15279.1 .
CCDSi CCDS17475.1.
PIRi I48745.
RefSeqi NP_001156961.1. NM_001163489.1.
NP_001156962.1. NM_001163490.1.
NP_001156963.1. NM_001163491.1.
NP_038686.3. NM_013658.3.
XP_006501252.1. XM_006501189.1.
UniGenei Mm.439752.

3D structure databases

ProteinModelPortali Q62178.
SMRi Q62178. Positions 37-627.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 10090.ENSMUSP00000029700.

PTM databases

PhosphoSitei Q62178.

Proteomic databases

MaxQBi Q62178.
PaxDbi Q62178.
PRIDEi Q62178.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENSMUST00000029700 ; ENSMUSP00000029700 ; ENSMUSG00000028064 .
ENSMUST00000165898 ; ENSMUSP00000128510 ; ENSMUSG00000028064 .
ENSMUST00000166237 ; ENSMUSP00000125909 ; ENSMUSG00000028064 .
ENSMUST00000169222 ; ENSMUSP00000128887 ; ENSMUSG00000028064 .
GeneIDi 20351.
KEGGi mmu:20351.
UCSCi uc008pvg.2. mouse.

Organism-specific databases

CTDi 64218.
MGIi MGI:107560. Sema4a.

Phylogenomic databases

eggNOGi NOG287504.
GeneTreei ENSGT00560000076864.
HOGENOMi HOG000116087.
HOVERGENi HBG061165.
KOi K06521.
OMAi FAFSPAC.
OrthoDBi EOG7H791Q.
PhylomeDBi Q62178.
TreeFami TF316102.

Miscellaneous databases

ChiTaRSi SEMA4A. mouse.
NextBioi 298207.
PROi Q62178.
SOURCEi Search...

Gene expression databases

ArrayExpressi Q62178.
Bgeei Q62178.
Genevestigatori Q62178.

Family and domain databases

Gene3Di 2.130.10.10. 1 hit.
InterProi IPR016201. Plexin-like_fold.
IPR002165. Plexin_repeat.
IPR001627. Semap_dom.
IPR027231. Semaphorin.
IPR015943. WD40/YVTN_repeat-like_dom.
[Graphical view ]
PANTHERi PTHR11036. PTHR11036. 1 hit.
Pfami PF01437. PSI. 1 hit.
PF01403. Sema. 1 hit.
[Graphical view ]
SMARTi SM00423. PSI. 1 hit.
SM00630. Sema. 1 hit.
[Graphical view ]
SUPFAMi SSF101912. SSF101912. 1 hit.
SSF103575. SSF103575. 1 hit.
PROSITEi PS51004. SEMA. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Murine semaphorin D/collapsin is a member of a diverse gene family and creates domains inhibitory for axonal extension."
    Pueschel A.W., Adams R.H., Betz H.
    Neuron 14:941-948(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Strain: NMRI.
    Tissue: Brain.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: C57BL/6J.
  3. Mural R.J., Adams M.D., Myers E.W., Smith H.O., Venter J.C.
    Submitted (SEP-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  4. "Class IV semaphorin Sema4A enhances T-cell activation and interacts with Tim-2."
    Kumanogoh A., Marukawa S., Suzuki K., Takegahara N., Watanabe C., Ch'ng E., Ishida I., Fujimura H., Sakoda S., Yoshida K., Kikutani H.
    Nature 419:629-633(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION, INTERACTION WITH TIMD2.
  5. Cited for: DISRUPTION PHENOTYPE.
  6. Cited for: DISRUPTION PHENOTYPE, SUBCELLULAR LOCATION, FUNCTION.
  7. "Semaphorin-4A, an activator for T-cell-mediated immunity, suppresses angiogenesis via plexin-D1."
    Toyofuku T., Yabuki M., Kamei J., Kamei M., Makino N., Kumanogoh A., Hori M.
    EMBO J. 26:1373-1384(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: DISRUPTION PHENOTYPE, FUNCTION, SUBCELLULAR LOCATION, INTERACTION WITH PLXND1.
  8. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Liver.
  9. "The phagosomal proteome in interferon-gamma-activated macrophages."
    Trost M., English L., Lemieux S., Courcelles M., Desjardins M., Thibault P.
    Immunity 30:143-154(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  10. "Sema4A induces cell morphological changes through B-type plexin-mediated signaling."
    Yukawa K., Tanaka T., Yoshida K., Takeuchi N., Ito T., Takamatsu H., Kikutani H., Kumanogoh A.
    Int. J. Mol. Med. 25:225-230(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION, INTERACTION WITH PLXNB1; PLXNB2 AND PLXNB3.

Entry informationi

Entry nameiSEM4A_MOUSE
AccessioniPrimary (citable) accession number: Q62178
Secondary accession number(s): D3Z5L2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: July 27, 2011
Last modified: July 9, 2014
This is version 117 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

Complete proteome, Reference proteome

Documents

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

External Data

Dasty 3

Similar proteinsi