Skip Header

You are using a version of Internet Explorer that may not display all features of this website. Please upgrade to a modern browser.
Contribute Send feedback
Read comments (?) or add your own

Q13275 (SEM3F_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 129. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (5) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Web links·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Semaphorin-3F
Alternative name(s):
Sema III/F
Semaphorin IV
Short name=Sema IV
Gene names
Name:SEMA3F
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length785 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at transcript level

General annotation (Comments)

Function

May play a role in cell motility and cell adhesion.

Subcellular location

Secreted By similarity.

Tissue specificity

Expressed abundantly but differentially in a variety of neural and nonneural tissues. There is high expression in mammary gland, kidney, fetal brain, and lung and lower expression in heart and liver.

Developmental stage

Detected as early as embryonic day 10.

Sequence similarities

Belongs to the semaphorin family.

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

Contains 1 Sema domain.

Ontologies

Keywords
   Cellular componentSecreted
   Coding sequence diversityAlternative splicing
Polymorphism
   DomainImmunoglobulin domain
Signal
   PTMDisulfide bond
Glycoprotein
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processaxon extension involved in axon guidance

Inferred from sequence or structural similarity. Source: BHF-UCL

axon guidance

Inferred from direct assay PubMed 15814794. Source: MGI

negative regulation of axon extension involved in axon guidance

Inferred from electronic annotation. Source: Ensembl

nerve development

Inferred from sequence or structural similarity. Source: BHF-UCL

neural crest cell migration

Inferred from electronic annotation. Source: Ensembl

semaphorin-plexin signaling pathway involved in neuron projection guidance

Inferred from sequence or structural similarity. Source: BHF-UCL

sympathetic ganglion development

Inferred from sequence or structural similarity. Source: BHF-UCL

sympathetic neuron projection extension

Inferred from sequence or structural similarity. Source: BHF-UCL

sympathetic neuron projection guidance

Inferred from sequence or structural similarity. Source: BHF-UCL

   Cellular_componentextracellular space

Traceable author statement Ref.2. Source: ProtInc

membrane

Inferred from electronic annotation. Source: InterPro

   Molecular_functionchemorepellent activity

Inferred from direct assay PubMed 15814794. Source: MGI

receptor activity

Inferred from electronic annotation. Source: InterPro

Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: Q13275-1)

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.
Isoform 2 (identifier: Q13275-2)

The sequence of this isoform differs from the canonical sequence as follows:
     153-183: Missing.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Signal peptide1 – 1818 Potential
Chain19 – 785767Semaphorin-3F
PRO_0000032320

Regions

Domain31 – 545515Sema
Domain605 – 69086Ig-like C2-type
Compositional bias758 – 77922Arg/Lys-rich (basic)

Amino acid modifications

Glycosylation531N-linked (GlcNAc...) Potential
Glycosylation1261N-linked (GlcNAc...) Potential
Disulfide bond104 ↔ 115 By similarity
Disulfide bond133 ↔ 142 By similarity
Disulfide bond300 ↔ 412 By similarity
Disulfide bond324 ↔ 372 By similarity
Disulfide bond548 ↔ 566 By similarity
Disulfide bond678 ↔ 746 By similarity

Natural variations

Alternative sequence153 – 18331Missing in isoform 2.
VSP_053417
Natural variant4741A → G.
Corresponds to variant rs1046955 [ dbSNP | Ensembl ].
VAR_011820
Natural variant5031L → M. Ref.2 Ref.5
Corresponds to variant rs1046956 [ dbSNP | Ensembl ].
VAR_008855

Experimental info

Sequence conflict2701Missing in AAB18276. Ref.2
Sequence conflict4731A → S in AAB18276. Ref.2

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified January 1, 1998. Version 2.
Checksum: FE3FC796EEC1608E

FASTA78588,381
        10         20         30         40         50         60 
MLVAGLLLWA SLLTGAWPSF PTQDHLPATP RVRLSFKELK ATGTAHFFNF LLNTTDYRIL 

        70         80         90        100        110        120 
LKDEDHDRMY VGSKDYVLSL DLHDINREPL IIHWAASPQR IEECVLSGKD VNGECGNFVR 

       130        140        150        160        170        180 
LIQPWNRTHL YVCGTGAYNP MCTYVNRGRR AQATPWTQTQ AVRGRGSRAT DGALRPMPTA 

       190        200        210        220        230        240 
PRQDYIFYLE PERLESGKGK CPYDPKLDTA SALINEELYA GVYIDFMGTD AAIFRTLGKQ 

       250        260        270        280        290        300 
TAMRTDQYNS RWLNDPSFIH AELIPDSAER NDDKLYFFFR ERSAEAPQSP AVYARIGRIC 

       310        320        330        340        350        360 
LNDDGGHCCL VNKWSTFLKA RLVCSVPGED GIETHFDELQ DVFVQQTQDV RNPVIYAVFT 

       370        380        390        400        410        420 
SSGSVFRGSA VCVYSMADIR MVFNGPFAHK EGPNYQWMPF SGKMPYPRPG TCPGGTFTPS 

       430        440        450        460        470        480 
MKSTKDYPDE VINFMRSHPL MYQAVYPLQR RPLVVRTGAP YRLTTIAVDQ VDAADGRYEV 

       490        500        510        520        530        540 
LFLGTDRGTV QKVIVLPKDD QELEELMLEE VEVFKDPAPV KTMTISSKRQ QLYVASAVGV 

       550        560        570        580        590        600 
THLSLHRCQA YGAACADCCL ARDPYCAWDG QACSRYTASS KRRSRRQDVR HGNPIRQCRG 

       610        620        630        640        650        660 
FNSNANKNAV ESVQYGVAGS AAFLECQPRS PQATVKWLFQ RDPGDRRREI RAEDRFLRTE 

       670        680        690        700        710        720 
QGLLLRALQL SDRGLYSCTA TENNFKHVVT RVQLHVLGRD AVHAALFPPL SMSAPPPPGA 

       730        740        750        760        770        780 
GPPTPPYQEL AQLLAQPEVG LIHQYCQGYW RHVPPSPREA PGAPRSPEPQ DQKKPRNRRH 


HPPDT 

« Hide

Isoform 2 [UniParc].

Checksum: AF4203BD1D2F2665
Show »

FASTA75485,064

References

« Hide 'large scale' references
[1]"Distinct 3p21.3 deletions in lung cancer and identification of a new human semaphorin."
Roche J., Boldog F., Robinson M., Robinson L., Varella-Garcia M., Swanton M., Waggoner B., Fishel R., Franklin W., Gemmill R., Drabkin H.
Oncogene 12:1289-1297(1996) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
Tissue: Fetal brain.
[2]"Isolation of the human semaphorin III/F gene (SEMA3F) at chromosome 3p21, a region deleted in lung cancer."
Xiang R.-H., Hensel C.H., Garcia D.K., Carlson H.C., Kok K., Daly M.C., Kerbacher K., van den Berg A., Veldhuis P., Buys C.H.C.M., Naylor S.L.
Genomics 32:39-48(1996) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2), VARIANT MET-503.
Tissue: Fetal brain.
[3]"The sequence of H. sapiens cosmid clone LUCA19."
Nelson J., Biewald T.
Submitted (NOV-1996) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[4]"The DNA sequence, annotation and analysis of human chromosome 3."
Muzny D.M., Scherer S.E., Kaul R., Wang J., Yu J., Sudbrak R., Buhay C.J., Chen R., Cree A., Ding Y., Dugan-Rocha S., Gill R., Gunaratne P., Harris R.A., Hawes A.C., Hernandez J., Hodgson A.V., Hume J. expand/collapse author list , Jackson A., Khan Z.M., Kovar-Smith C., Lewis L.R., Lozado R.J., Metzker M.L., Milosavljevic A., Miner G.R., Morgan M.B., Nazareth L.V., Scott G., Sodergren E., Song X.-Z., Steffen D., Wei S., Wheeler D.A., Wright M.W., Worley K.C., Yuan Y., Zhang Z., Adams C.Q., Ansari-Lari M.A., Ayele M., Brown M.J., Chen G., Chen Z., Clendenning J., Clerc-Blankenburg K.P., Chen R., Chen Z., Davis C., Delgado O., Dinh H.H., Dong W., Draper H., Ernst S., Fu G., Gonzalez-Garay M.L., Garcia D.K., Gillett W., Gu J., Hao B., Haugen E., Havlak P., He X., Hennig S., Hu S., Huang W., Jackson L.R., Jacob L.S., Kelly S.H., Kube M., Levy R., Li Z., Liu B., Liu J., Liu W., Lu J., Maheshwari M., Nguyen B.-V., Okwuonu G.O., Palmeiri A., Pasternak S., Perez L.M., Phelps K.A., Plopper F.J., Qiang B., Raymond C., Rodriguez R., Saenphimmachak C., Santibanez J., Shen H., Shen Y., Subramanian S., Tabor P.E., Verduzco D., Waldron L., Wang J., Wang J., Wang Q., Williams G.A., Wong G.K.-S., Yao Z., Zhang J., Zhang X., Zhao G., Zhou J., Zhou Y., Nelson D., Lehrach H., Reinhardt R., Naylor S.L., Yang H., Olson M., Weinstock G., Gibbs R.A.
Nature 440:1194-1198(2006) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[5]"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] (ISOFORM 1), VARIANT MET-503.
Tissue: Brain.
[6]"Human semaphorins A(V) and IV reside in the 3p21.3 small cell lung cancer deletion region and demonstrate distinct expression patterns."
Sekido Y., Bader S., Latif F., Chen J.-Y., Duh F.-M., Wei M.-H., Albanesi J.P., Lee C.-C., Lerman M.I., Minna J.D.
Proc. Natl. Acad. Sci. U.S.A. 93:4120-4125(1996) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 394-436 (ISOFORM 1/2).
Tissue: Placenta.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
U33920 mRNA. Translation: AAC50568.1.
U38276 mRNA. Translation: AAB18276.1.
AC000063 Genomic DNA. Translation: AAB46344.1.
AC104450 Genomic DNA. No translation available.
BC042914 mRNA. Translation: AAH42914.1.
U32171 mRNA. Translation: AAB06011.1.
U32172 mRNA. Translation: AAB06012.1.
PIRG02173.
RefSeqNP_004177.3. NM_004186.3.
XP_005265438.1. XM_005265381.2.
XP_005265439.1. XM_005265382.2.
UniGeneHs.32981.

3D structure databases

ProteinModelPortalQ13275.
SMRQ13275. Positions 30-697.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid112305. 3 interactions.
IntActQ13275. 2 interactions.
MINTMINT-1392156.
STRING9606.ENSP00000002829.

PTM databases

PhosphoSiteQ13275.

Polymorphism databases

DMDM8134696.

Proteomic databases

PaxDbQ13275.
PRIDEQ13275.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000002829; ENSP00000002829; ENSG00000001617. [Q13275-1]
ENST00000434342; ENSP00000409859; ENSG00000001617. [Q13275-2]
GeneID6405.
KEGGhsa:6405.
UCSCuc003cyj.3. human. [Q13275-1]

Organism-specific databases

CTD6405.
GeneCardsGC03P050167.
H-InvDBHIX0204323.
HGNCHGNC:10728. SEMA3F.
HPAHPA035008.
MIM601124. gene.
neXtProtNX_Q13275.
PharmGKBPA35650.
GenAtlasSearch...

Phylogenomic databases

eggNOGNOG320723.
HOGENOMHOG000039964.
HOVERGENHBG055071.
InParanoidQ13275.
KOK06840.
OMAACSRYTA.
PhylomeDBQ13275.
TreeFamTF352628.

Gene expression databases

ArrayExpressQ13275.
BgeeQ13275.
CleanExHS_SEMA3F.
GenevestigatorQ13275.

Family and domain databases

Gene3D2.130.10.10. 2 hits.
2.60.40.10. 1 hit.
InterProIPR007110. 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]
PANTHERPTHR11036. PTHR11036. 1 hit.
PfamPF01403. Sema. 1 hit.
[Graphical view]
SMARTSM00409. IG. 1 hit.
SM00423. PSI. 1 hit.
SM00630. Sema. 1 hit.
[Graphical view]
SUPFAMSSF101912. SSF101912. 2 hits.
SSF103575. SSF103575. 1 hit.
PROSITEPS50835. IG_LIKE. 1 hit.
PS51004. SEMA. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

GeneWikiSEMA3F.
GenomeRNAi6405.
NextBio24886.
PROQ13275.
SOURCESearch...

Entry information

Entry nameSEM3F_HUMAN
AccessionPrimary (citable) accession number: Q13275
Secondary accession number(s): C9JQ85 expand/collapse secondary AC list , Q13274, Q13372, Q15704, Q6GTR4
Entry history
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: January 1, 1998
Last modified: April 16, 2014
This is version 129 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Relevant documents

SIMILARITY comments

Index of protein domains and families

MIM cross-references

Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

Human polymorphisms and disease mutations

Index of human polymorphisms and disease mutations

Human entries with polymorphisms or disease mutations

List of human entries with polymorphisms or disease mutations

Human chromosome 3

Human chromosome 3: entries, gene names and cross-references to MIM