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Protein

Semaphorin-4F

Gene

Sema4f

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

Functioni

Has growth cone collapse activity against retinal ganglion-cell axons.By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Developmental protein

Keywords - Biological processi

Differentiation, Neurogenesis

Names & Taxonomyi

Protein namesi
Recommended name:
Semaphorin-4F
Alternative name(s):
Semaphorin-W
Short name:
Sema W
Gene namesi
Name:Sema4f
Synonyms:Semaw
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 6

Organism-specific databases

MGIiMGI:1340055. Sema4f.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini41 – 667627ExtracellularSequence analysisAdd
BLAST
Transmembranei668 – 68821HelicalSequence analysisAdd
BLAST
Topological domaini689 – 77789CytoplasmicSequence analysisAdd
BLAST

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 4040Sequence analysisAdd
BLAST
Chaini41 – 777737Semaphorin-4FPRO_0000032331Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi70 – 701N-linked (GlcNAc...)Sequence analysis
Disulfide bondi118 ↔ 128PROSITE-ProRule annotation
Glycosylationi139 – 1391N-linked (GlcNAc...)Sequence analysis
Disulfide bondi146 ↔ 155PROSITE-ProRule annotation
Disulfide bondi279 ↔ 390PROSITE-ProRule annotation
Disulfide bondi303 ↔ 349PROSITE-ProRule annotation
Glycosylationi515 – 5151N-linked (GlcNAc...)Sequence analysis
Disulfide bondi519 ↔ 536PROSITE-ProRule annotation
Disulfide bondi528 ↔ 545PROSITE-ProRule annotation
Disulfide bondi593 ↔ 634PROSITE-ProRule annotation
Modified residuei725 – 7251PhosphoserineCombined sources
Modified residuei727 – 7271PhosphoserineCombined sources

Keywords - PTMi

Disulfide bond, Glycoprotein, Phosphoprotein

Proteomic databases

MaxQBiQ9Z123.
PaxDbiQ9Z123.
PRIDEiQ9Z123.

PTM databases

iPTMnetiQ9Z123.
PhosphoSiteiQ9Z123.

Expressioni

Gene expression databases

BgeeiQ9Z123.
ExpressionAtlasiQ9Z123. baseline and differential.
GenevisibleiQ9Z123. MM.

Interactioni

GO - Molecular functioni

Protein-protein interaction databases

BioGridi203170. 1 interaction.
STRINGi10090.ENSMUSP00000000641.

Structurei

3D structure databases

ProteinModelPortaliQ9Z123.
SMRiQ9Z123. Positions 46-638.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini48 – 516469SemaPROSITE-ProRule annotationAdd
BLAST
Domaini518 – 56952PSIAdd
BLAST
Domaini586 – 64156Ig-like C2-typeAdd
BLAST

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, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG3611. Eukaryota.
ENOG410XQZC. LUCA.
GeneTreeiENSGT00760000118854.
HOGENOMiHOG000116087.
HOVERGENiHBG093234.
InParanoidiQ9Z123.
KOiK06521.
OMAiCNRGLPV.
OrthoDBiEOG7KM5S4.
TreeFamiTF352903.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
InterProiIPR016201. Plexin-like_fold.
IPR002165. Plexin_repeat.
IPR015512. Seamphorin_4F.
IPR001627. Semap_dom.
IPR027231. Semaphorin.
IPR015943. WD40/YVTN_repeat-like_dom.
[Graphical view]
PANTHERiPTHR11036. PTHR11036. 1 hit.
PTHR11036:SF72. PTHR11036:SF72. 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.

Q9Z123-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLARAERPRP GPRPPPVSLF PPPSSLLLLL LAMLSAPVCG RVPRSVPRTS
60 70 80 90 100
LPISEADSYL TRFAAPHTYN YSALLVDPAS HTLYVGARDS IFALTLPFSG
110 120 130 140 150
EKPRRIDWMV PETHRQNCRK KGKKEDECHN FIQILAIANA SHLLTCGTFA
160 170 180 190 200
FDPKCGVIDV SSFQQVERLE SGRGKCPFEP AQRSAAVMAG GVLYTATVKN
210 220 230 240 250
FLGTEPIISR AVGRAEDWIR TETLSSWLNA PAFVAAMVLS PAEWGDEDGD
260 270 280 290 300
DEIFFFFTET SRVLDSYERI KVPRVARVCA GDLGGRKTLQ QRWTTFLKAD
310 320 330 340 350
LLCPGPEHGR ASGVLQDMTE LRPQPGAGTP LFYGIFSSQW EGAAISAVCA
360 370 380 390 400
FRPQDIRAVL NGPFRELKHD CNRGLPVMDN EVPQPRPGEC ITNNMKFQQF
410 420 430 440 450
GSSLSLPDRV LTFIRDHPLM DRPVFPADGR PLLVTTDTAY LRVVAHRVTS
460 470 480 490 500
LSGKEYDVLY LGTEDGHLHR AVRIGAQLSV LEDLALFPET QPVESMKLYH
510 520 530 540 550
DWLLVGSHTE VTQVNTSNCG RLQSCSECIL AQDPVCAWSF RLDACVAHAG
560 570 580 590 600
EHRGMVQDIE SADVSSLCPK EPGEHPVVFE VPVATVGHVV LPCSPSSAWA
610 620 630 640 650
SCVWHQPSGV TSLTPRRDGL EVVVTPGAMG AYACECQEGG AARVVAAYSL
660 670 680 690 700
VWGSQRGPAN RAHTVVGAGL VGFFLGVLAA SLTLLLIGRR QQRRRQRELL
710 720 730 740 750
ARDKVGLDLG APPSGTTSYS QDPPSPSPED ERLPLALGKR GSGFGGFPPP
760 770
FLLDSCPSPA HIRLTGAPLA TCDETSI
Length:777
Mass (Da):84,490
Last modified:July 27, 2011 - v2
Checksum:i3338F4F0AEFBF0DA
GO

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti490 – 4901T → P in strain: BALB/c.
Natural varianti659 – 6591A → S in strain: BALB/c.

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB021291 mRNA. Translation: BAA75630.1.
AB022316 Genomic DNA. Translation: BAA75634.1.
CH466523 Genomic DNA. Translation: EDK99043.1.
BC094567 mRNA. Translation: AAH94567.1.
CCDSiCCDS20264.1.
RefSeqiNP_035480.3. NM_011350.4.
UniGeneiMm.270543.

Genome annotation databases

EnsembliENSMUST00000000641; ENSMUSP00000000641; ENSMUSG00000000627.
GeneIDi20355.
KEGGimmu:20355.
UCSCiuc009clo.2. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB021291 mRNA. Translation: BAA75630.1.
AB022316 Genomic DNA. Translation: BAA75634.1.
CH466523 Genomic DNA. Translation: EDK99043.1.
BC094567 mRNA. Translation: AAH94567.1.
CCDSiCCDS20264.1.
RefSeqiNP_035480.3. NM_011350.4.
UniGeneiMm.270543.

3D structure databases

ProteinModelPortaliQ9Z123.
SMRiQ9Z123. Positions 46-638.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi203170. 1 interaction.
STRINGi10090.ENSMUSP00000000641.

PTM databases

iPTMnetiQ9Z123.
PhosphoSiteiQ9Z123.

Proteomic databases

MaxQBiQ9Z123.
PaxDbiQ9Z123.
PRIDEiQ9Z123.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000000641; ENSMUSP00000000641; ENSMUSG00000000627.
GeneIDi20355.
KEGGimmu:20355.
UCSCiuc009clo.2. mouse.

Organism-specific databases

CTDi10505.
MGIiMGI:1340055. Sema4f.

Phylogenomic databases

eggNOGiKOG3611. Eukaryota.
ENOG410XQZC. LUCA.
GeneTreeiENSGT00760000118854.
HOGENOMiHOG000116087.
HOVERGENiHBG093234.
InParanoidiQ9Z123.
KOiK06521.
OMAiCNRGLPV.
OrthoDBiEOG7KM5S4.
TreeFamiTF352903.

Miscellaneous databases

PROiQ9Z123.
SOURCEiSearch...

Gene expression databases

BgeeiQ9Z123.
ExpressionAtlasiQ9Z123. baseline and differential.
GenevisibleiQ9Z123. MM.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
InterProiIPR016201. Plexin-like_fold.
IPR002165. Plexin_repeat.
IPR015512. Seamphorin_4F.
IPR001627. Semap_dom.
IPR027231. Semaphorin.
IPR015943. WD40/YVTN_repeat-like_dom.
[Graphical view]
PANTHERiPTHR11036. PTHR11036. 1 hit.
PTHR11036:SF72. PTHR11036:SF72. 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]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Cloning, expression, and genetic mapping of Sema W, a member of the semaphorin family."
    Encinas J.A., Kikuchi K., Chedotal A., de Castro F., Goodman C.S., Kimura T.
    Proc. Natl. Acad. Sci. U.S.A. 96:2491-2496(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA].
    Strain: 129/SvJ and BALB/c.
    Tissue: Brain.
  2. Mural R.J., Adams M.D., Myers E.W., Smith H.O., Venter J.C.
    Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  3. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: C57BL/6J.
    Tissue: Brain.
  4. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-725 AND SER-727, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Brain.

Entry informationi

Entry nameiSEM4F_MOUSE
AccessioniPrimary (citable) accession number: Q9Z123
Secondary accession number(s): Q505G0, Q9R1Y1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: July 27, 2011
Last modified: July 6, 2016
This is version 127 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

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.