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Q13275

- SEM3F_HUMAN

UniProt

Q13275 - SEM3F_HUMAN

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Protein
Semaphorin-3F
Gene
SEMA3F
Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at transcript leveli

Functioni

May play a role in cell motility and cell adhesion.

GO - Molecular functioni

  1. chemorepellent activity Source: MGI
  2. receptor activity Source: InterPro

GO - Biological processi

  1. axon extension involved in axon guidance Source: BHF-UCL
  2. axon guidance Source: MGI
  3. negative regulation of axon extension involved in axon guidance Source: Ensembl
  4. nerve development Source: BHF-UCL
  5. neural crest cell migration Source: Ensembl
  6. semaphorin-plexin signaling pathway involved in neuron projection guidance Source: BHF-UCL
  7. sympathetic ganglion development Source: BHF-UCL
  8. sympathetic neuron projection extension Source: BHF-UCL
  9. sympathetic neuron projection guidance Source: BHF-UCL
Complete GO annotation...

Names & Taxonomyi

Protein namesi
Recommended name:
Semaphorin-3F
Alternative name(s):
Sema III/F
Semaphorin IV
Short name:
Sema IV
Gene namesi
Name:SEMA3F
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640: Chromosome 3

Organism-specific databases

HGNCiHGNC:10728. SEMA3F.

Subcellular locationi

Secreted By similarity

GO - Cellular componenti

  1. extracellular space Source: ProtInc
  2. membrane Source: InterPro
Complete GO annotation...

Keywords - Cellular componenti

Secreted

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA35650.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 1818 Reviewed prediction
Add
BLAST
Chaini19 – 785767Semaphorin-3F
PRO_0000032320Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi53 – 531N-linked (GlcNAc...) Reviewed prediction
Disulfide bondi104 ↔ 115 By similarity
Glycosylationi126 – 1261N-linked (GlcNAc...) Reviewed prediction
Disulfide bondi133 ↔ 142 By similarity
Disulfide bondi300 ↔ 412 By similarity
Disulfide bondi324 ↔ 372 By similarity
Disulfide bondi548 ↔ 566 By similarity
Disulfide bondi678 ↔ 746 By similarity

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

MaxQBiQ13275.
PaxDbiQ13275.
PRIDEiQ13275.

PTM databases

PhosphoSiteiQ13275.

Expressioni

Tissue specificityi

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 stagei

Detected as early as embryonic day 10.

Gene expression databases

ArrayExpressiQ13275.
BgeeiQ13275.
CleanExiHS_SEMA3F.
GenevestigatoriQ13275.

Organism-specific databases

HPAiHPA035008.

Interactioni

Protein-protein interaction databases

BioGridi112305. 3 interactions.
IntActiQ13275. 2 interactions.
MINTiMINT-1392156.
STRINGi9606.ENSP00000002829.

Structurei

3D structure databases

ProteinModelPortaliQ13275.
SMRiQ13275. Positions 30-697.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini31 – 545515Sema
Add
BLAST
Domaini605 – 69086Ig-like C2-type
Add
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi758 – 77922Arg/Lys-rich (basic)
Add
BLAST

Sequence similaritiesi

Belongs to the semaphorin family.
Contains 1 Sema domain.

Keywords - Domaini

Immunoglobulin domain, Signal

Phylogenomic databases

eggNOGiNOG320723.
HOGENOMiHOG000039964.
HOVERGENiHBG055071.
InParanoidiQ13275.
KOiK06840.
OMAiACSRYTA.
PhylomeDBiQ13275.
TreeFamiTF352628.

Family and domain databases

Gene3Di2.130.10.10. 2 hits.
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. 2 hits.
SSF103575. SSF103575. 1 hit.
PROSITEiPS50835. IG_LIKE. 1 hit.
PS51004. SEMA. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

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

This entry describes 2 isoformsi produced by alternative splicing. Align

Isoform 1 (identifier: Q13275-1) [UniParc]FASTAAdd to Basket

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.

« Hide

MLVAGLLLWA SLLTGAWPSF PTQDHLPATP RVRLSFKELK ATGTAHFFNF    50
LLNTTDYRIL LKDEDHDRMY VGSKDYVLSL DLHDINREPL IIHWAASPQR 100
IEECVLSGKD VNGECGNFVR LIQPWNRTHL YVCGTGAYNP MCTYVNRGRR 150
AQATPWTQTQ AVRGRGSRAT DGALRPMPTA PRQDYIFYLE PERLESGKGK 200
CPYDPKLDTA SALINEELYA GVYIDFMGTD AAIFRTLGKQ TAMRTDQYNS 250
RWLNDPSFIH AELIPDSAER NDDKLYFFFR ERSAEAPQSP AVYARIGRIC 300
LNDDGGHCCL VNKWSTFLKA RLVCSVPGED GIETHFDELQ DVFVQQTQDV 350
RNPVIYAVFT SSGSVFRGSA VCVYSMADIR MVFNGPFAHK EGPNYQWMPF 400
SGKMPYPRPG TCPGGTFTPS MKSTKDYPDE VINFMRSHPL MYQAVYPLQR 450
RPLVVRTGAP YRLTTIAVDQ VDAADGRYEV LFLGTDRGTV QKVIVLPKDD 500
QELEELMLEE VEVFKDPAPV KTMTISSKRQ QLYVASAVGV THLSLHRCQA 550
YGAACADCCL ARDPYCAWDG QACSRYTASS KRRSRRQDVR HGNPIRQCRG 600
FNSNANKNAV ESVQYGVAGS AAFLECQPRS PQATVKWLFQ RDPGDRRREI 650
RAEDRFLRTE QGLLLRALQL SDRGLYSCTA TENNFKHVVT RVQLHVLGRD 700
AVHAALFPPL SMSAPPPPGA GPPTPPYQEL AQLLAQPEVG LIHQYCQGYW 750
RHVPPSPREA PGAPRSPEPQ DQKKPRNRRH HPPDT 785
Length:785
Mass (Da):88,381
Last modified:January 1, 1998 - v2
Checksum:iFE3FC796EEC1608E
GO
Isoform 2 (identifier: Q13275-2) [UniParc]FASTAAdd to Basket

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

Show »
Length:754
Mass (Da):85,064
Checksum:iAF4203BD1D2F2665
GO

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti474 – 4741A → G.
Corresponds to variant rs1046955 [ dbSNP | Ensembl ].
VAR_011820
Natural varianti503 – 5031L → M.2 Publications
Corresponds to variant rs1046956 [ dbSNP | Ensembl ].
VAR_008855

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei153 – 18331Missing in isoform 2.
VSP_053417Add
BLAST

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti270 – 2701Missing in AAB18276. 1 Publication
Sequence conflicti473 – 4731A → S in AAB18276. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
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.
CCDSiCCDS2811.1. [Q13275-1]
PIRiG02173.
RefSeqiNP_004177.3. NM_004186.3. [Q13275-1]
XP_005265438.1. XM_005265381.2. [Q13275-1]
XP_005265439.1. XM_005265382.2. [Q13275-2]
UniGeneiHs.32981.

Genome annotation databases

EnsembliENST00000002829; ENSP00000002829; ENSG00000001617. [Q13275-1]
ENST00000434342; ENSP00000409859; ENSG00000001617. [Q13275-2]
GeneIDi6405.
KEGGihsa:6405.
UCSCiuc003cyj.3. human. [Q13275-1]

Polymorphism databases

DMDMi8134696.

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Web resourcesi

Atlas of Genetics and Cytogenetics in Oncology and Haematology

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
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 .
CCDSi CCDS2811.1. [Q13275-1 ]
PIRi G02173.
RefSeqi NP_004177.3. NM_004186.3. [Q13275-1 ]
XP_005265438.1. XM_005265381.2. [Q13275-1 ]
XP_005265439.1. XM_005265382.2. [Q13275-2 ]
UniGenei Hs.32981.

3D structure databases

ProteinModelPortali Q13275.
SMRi Q13275. Positions 30-697.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 112305. 3 interactions.
IntActi Q13275. 2 interactions.
MINTi MINT-1392156.
STRINGi 9606.ENSP00000002829.

PTM databases

PhosphoSitei Q13275.

Polymorphism databases

DMDMi 8134696.

Proteomic databases

MaxQBi Q13275.
PaxDbi Q13275.
PRIDEi Q13275.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENST00000002829 ; ENSP00000002829 ; ENSG00000001617 . [Q13275-1 ]
ENST00000434342 ; ENSP00000409859 ; ENSG00000001617 . [Q13275-2 ]
GeneIDi 6405.
KEGGi hsa:6405.
UCSCi uc003cyj.3. human. [Q13275-1 ]

Organism-specific databases

CTDi 6405.
GeneCardsi GC03P050167.
H-InvDB HIX0204323.
HGNCi HGNC:10728. SEMA3F.
HPAi HPA035008.
MIMi 601124. gene.
neXtProti NX_Q13275.
PharmGKBi PA35650.
GenAtlasi Search...

Phylogenomic databases

eggNOGi NOG320723.
HOGENOMi HOG000039964.
HOVERGENi HBG055071.
InParanoidi Q13275.
KOi K06840.
OMAi ACSRYTA.
PhylomeDBi Q13275.
TreeFami TF352628.

Miscellaneous databases

GeneWikii SEMA3F.
GenomeRNAii 6405.
NextBioi 24886.
PROi Q13275.
SOURCEi Search...

Gene expression databases

ArrayExpressi Q13275.
Bgeei Q13275.
CleanExi HS_SEMA3F.
Genevestigatori Q13275.

Family and domain databases

Gene3Di 2.130.10.10. 2 hits.
2.60.40.10. 1 hit.
InterProi IPR007110. 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 ]
PANTHERi PTHR11036. PTHR11036. 1 hit.
Pfami PF01403. Sema. 1 hit.
[Graphical view ]
SMARTi SM00409. IG. 1 hit.
SM00423. PSI. 1 hit.
SM00630. Sema. 1 hit.
[Graphical view ]
SUPFAMi SSF101912. SSF101912. 2 hits.
SSF103575. SSF103575. 1 hit.
PROSITEi PS50835. IG_LIKE. 1 hit.
PS51004. SEMA. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  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.
    , 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.

Entry informationi

Entry nameiSEM3F_HUMAN
AccessioniPrimary (citable) accession number: Q13275
Secondary accession number(s): C9JQ85
, Q13274, Q13372, Q15704, Q6GTR4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: January 1, 1998
Last modified: July 9, 2014
This is version 131 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (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.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 3
    Human chromosome 3: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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