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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. branchiomotor neuron axon guidance Source: Ensembl
  4. facial nerve structural organization Source: Ensembl
  5. negative regulation of axon extension involved in axon guidance Source: Ensembl
  6. nerve development Source: BHF-UCL
  7. neural crest cell migration Source: Ensembl
  8. semaphorin-plexin signaling pathway involved in axon guidance Source: Ensembl
  9. semaphorin-plexin signaling pathway involved in neuron projection guidance Source: BHF-UCL
  10. sympathetic ganglion development Source: BHF-UCL
  11. sympathetic neuron projection extension Source: BHF-UCL
  12. sympathetic neuron projection guidance Source: BHF-UCL
  13. trigeminal nerve structural organization Source: Ensembl
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 – 1818Sequence AnalysisAdd
BLAST
Chaini19 – 785767Semaphorin-3FPRO_0000032320Add
BLAST

Amino acid modifications

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

BgeeiQ13275.
CleanExiHS_SEMA3F.
ExpressionAtlasiQ13275. baseline and differential.
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.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini31 – 545515SemaPROSITE-ProRule annotationAdd
BLAST
Domaini605 – 69086Ig-like C2-typeAdd
BLAST

Compositional bias

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

Sequence similaritiesi

Belongs to the semaphorin family.Curated
Contains 1 Sema domain.PROSITE-ProRule annotation

Keywords - Domaini

Immunoglobulin domain, Signal

Phylogenomic databases

eggNOGiNOG320723.
GeneTreeiENSGT00760000118854.
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

        10         20         30         40         50
MLVAGLLLWA SLLTGAWPSF PTQDHLPATP RVRLSFKELK ATGTAHFFNF
60 70 80 90 100
LLNTTDYRIL LKDEDHDRMY VGSKDYVLSL DLHDINREPL IIHWAASPQR
110 120 130 140 150
IEECVLSGKD VNGECGNFVR LIQPWNRTHL YVCGTGAYNP MCTYVNRGRR
160 170 180 190 200
AQATPWTQTQ AVRGRGSRAT DGALRPMPTA PRQDYIFYLE PERLESGKGK
210 220 230 240 250
CPYDPKLDTA SALINEELYA GVYIDFMGTD AAIFRTLGKQ TAMRTDQYNS
260 270 280 290 300
RWLNDPSFIH AELIPDSAER NDDKLYFFFR ERSAEAPQSP AVYARIGRIC
310 320 330 340 350
LNDDGGHCCL VNKWSTFLKA RLVCSVPGED GIETHFDELQ DVFVQQTQDV
360 370 380 390 400
RNPVIYAVFT SSGSVFRGSA VCVYSMADIR MVFNGPFAHK EGPNYQWMPF
410 420 430 440 450
SGKMPYPRPG TCPGGTFTPS MKSTKDYPDE VINFMRSHPL MYQAVYPLQR
460 470 480 490 500
RPLVVRTGAP YRLTTIAVDQ VDAADGRYEV LFLGTDRGTV QKVIVLPKDD
510 520 530 540 550
QELEELMLEE VEVFKDPAPV KTMTISSKRQ QLYVASAVGV THLSLHRCQA
560 570 580 590 600
YGAACADCCL ARDPYCAWDG QACSRYTASS KRRSRRQDVR HGNPIRQCRG
610 620 630 640 650
FNSNANKNAV ESVQYGVAGS AAFLECQPRS PQATVKWLFQ RDPGDRRREI
660 670 680 690 700
RAEDRFLRTE QGLLLRALQL SDRGLYSCTA TENNFKHVVT RVQLHVLGRD
710 720 730 740 750
AVHAALFPPL SMSAPPPPGA GPPTPPYQEL AQLLAQPEVG LIHQYCQGYW
760 770 780
RHVPPSPREA PGAPRSPEPQ DQKKPRNRRH HPPDT
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

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti270 – 2701Missing in AAB18276. (PubMed:8786119)Curated
Sequence conflicti473 – 4731A → S in AAB18276. (PubMed:8786119)Curated

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. 1 PublicationVSP_053417Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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:
EMBLi
GenBanki
DDBJi
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.
GeneTreei ENSGT00760000118854.
HOGENOMi HOG000039964.
HOVERGENi HBG055071.
InParanoidi Q13275.
KOi K06840.
OMAi ACSRYTA.
PhylomeDBi Q13275.
TreeFami TF352628.

Miscellaneous databases

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

Gene expression databases

Bgeei Q13275.
CleanExi HS_SEMA3F.
ExpressionAtlasi Q13275. baseline and differential.
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: November 26, 2014
This is version 134 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