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Q13214 (SEM3B_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified March 19, 2014. Version 123. 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-3B
Alternative name(s):
Sema A(V)
Semaphorin-V
Short name=Sema V
Gene names
Name:SEMA3B
Synonyms:SEMA5, SEMAA
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length749 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at transcript level

General annotation (Comments)

Function

Inhibits axonal extension by providing local signals to specify territories inaccessible for growing axons By similarity.

Subcellular location

Secreted By similarity. Endoplasmic reticulum. Note: Accumulates in the endoplasmic reticulum.

Tissue specificity

Expressed abundantly but differentially in a variety of neural and nonneural tissues.

Sequence similarities

Belongs to the semaphorin family.

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

Contains 1 PSI domain.

Contains 1 Sema domain.

Sequence caution

The sequence AAC02731.1 differs from that shown. Reason: Erroneous gene model prediction.

Ontologies

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: Q13214-1)

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: Q13214-2)

The sequence of this isoform differs from the canonical sequence as follows:
     332-332: Missing.
Note: No experimental confirmation available.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Signal peptide1 – 2424 Potential
Chain25 – 749725Semaphorin-3B
PRO_0000032309

Regions

Domain30 – 513484Sema
Domain573 – 65987Ig-like C2-type
Compositional bias699 – 7024Poly-Gly
Compositional bias724 – 74421Arg-rich (basic)

Amino acid modifications

Glycosylation821N-linked (GlcNAc...) Potential
Glycosylation1241N-linked (GlcNAc...) Potential
Glycosylation4271N-linked (GlcNAc...) Potential
Disulfide bond102 ↔ 113 By similarity
Disulfide bond131 ↔ 140 By similarity
Disulfide bond269 ↔ 380 By similarity
Disulfide bond293 ↔ 340 By similarity
Disulfide bond516 ↔ 534 By similarity
Disulfide bond644 ↔ 710 By similarity

Natural variations

Alternative sequence3321Missing in isoform 2.
VSP_023032
Natural variant3481R → C in a non-small cell lung cancer cell line. Ref.5
VAR_014221
Natural variant3971D → H in a non-small cell lung cancer cell line. Ref.5
VAR_014222
Natural variant4151T → I in a non-small cell lung cancer cell line. Ref.5
Corresponds to variant rs2071203 [ dbSNP | Ensembl ].
VAR_014223

Experimental info

Sequence conflict29 – 368PRLRLSFQ → HAFGSPSKV in AAC02731. Ref.3
Sequence conflict3081Q → RPFPAE in BAB88870. Ref.2

Sequences

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

Last modified November 1, 1996. Version 1.
Checksum: 1F3B8F63F59444F3

FASTA74983,122
        10         20         30         40         50         60 
MGRAGAAAVI PGLALLWAVG LGSAAPSPPR LRLSFQELQA WHGLQTFSLE RTCCYQALLV 

        70         80         90        100        110        120 
DEERGRLFVG AENHVASLNL DNISKRAKKL AWPAPVEWRE ECNWAGKDIG TECMNFVKLL 

       130        140        150        160        170        180 
HAYNRTHLLA CGTGAFHPTC AFVEVGHRAE EPVLRLDPGR IEDGKGKSPY DPRHRAASVL 

       190        200        210        220        230        240 
VGEELYSGVA ADLMGRDFTI FRSLGQRPSL RTEPHDSRWL NEPKFVKVFW IPESENPDDD 

       250        260        270        280        290        300 
KIYFFFRETA VEAAPALGRL SVSRVGQICR NDVGGQRSLV NKWTTFLKAR LVCSVPGVEG 

       310        320        330        340        350        360 
DTHFDQLQDV FLLSSRDHRT PLLYAVFSTS SSIFQGSAVC VYSMNDVRRA FLGPFAHKEG 

       370        380        390        400        410        420 
PMHQWVSYQG RVPYPRPGMC PSKTFGTFSS TKDFPDDVIQ FARNHPLMYN SVLPTGGRPL 

       430        440        450        460        470        480 
FLQVGANYTF TQIAADRVAA ADGHYDVLFI GTDVGTVLKV ISVPKGSRPS AEGLLLEELH 

       490        500        510        520        530        540 
VFEDSAAVTS MQISSKRHQL YVASRSAVAQ IALHRCAAHG RVCTECCLAR DPYCAWDGVA 

       550        560        570        580        590        600 
CTRFQPSAKR RFRRQDVRNG DPSTLCSGDS SRPALLEHKV FGVEGSSAFL ECEPRSLQAR 

       610        620        630        640        650        660 
VEWTFQRAGV TAHTQVLAEE RTERTARGLL LRRLRRRDSG VYLCAAVEQG FTQPLRRLSL 

       670        680        690        700        710        720 
HVLSATQAER LARAEEAAPA APPGPKLWYR DFLQLVEPGG GGSANSLRMC RPQPALQSLP 

       730        740 
LESRRKGRNR RTHAPEPRAE RGPRSATHW 

« Hide

Isoform 2 [UniParc].

Checksum: 587C53CB65AB4656
Show »

FASTA74883,035

References

« Hide 'large scale' references
[1]"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] (ISOFORM 1).
[2]"Semaphorin 3B (SEMA3B) cDNA."
Koyama N.
Submitted (APR-2002) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
[3]"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].
[4]"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 2).
Tissue: Brain and Muscle.
[5]"The 630-kb lung cancer homozygous deletion region on human chromosome 3p21.3: identification and evaluation of the resident candidate tumor suppressor genes."
The international lung cancer chromosome 3p21.3 tumor suppressor gene consortium
Lerman M.I., Minna J.D.
Cancer Res. 60:6116-6133(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: DISCUSSION OF SEQUENCE, VARIANTS CYS-348; HIS-397 AND ILE-415.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
U28369 mRNA. Translation: AAD09138.1.
AB083186 mRNA. Translation: BAB88870.1.
U73167 Genomic DNA. Translation: AAC02731.1. Sequence problems.
BC009113 mRNA. Translation: AAH09113.1.
BC013975 mRNA. Translation: AAH13975.1.
BC024220 mRNA. Translation: AAH24220.1.
PIRG01856.
RefSeqNP_001005914.1. NM_001005914.1.
NP_004627.1. NM_004636.2.
XP_005277585.1. XM_005277528.1.
UniGeneHs.82222.

3D structure databases

ProteinModelPortalQ13214.
SMRQ13214. Positions 29-649.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid113618. 1 interaction.
IntActQ13214. 1 interaction.
STRING9606.ENSP00000389817.

Polymorphism databases

DMDM8134673.

Proteomic databases

PaxDbQ13214.
PRIDEQ13214.

Protocols and materials databases

DNASU7869.
StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000575064; ENSP00000461497; ENSG00000262015. [Q13214-1]
ENST00000587144; ENSP00000465436; ENSG00000262015.
GeneID7869.
KEGGhsa:7869.
UCSCuc003cyt.3. human. [Q13214-2]
uc003cyu.3. human. [Q13214-1]

Organism-specific databases

CTD7869.
GeneCardsGC03P050304.
HGNCHGNC:10724. SEMA3B.
MIM601281. gene.
neXtProtNX_Q13214.
PharmGKBPA35646.
GenAtlasSearch...

Phylogenomic databases

eggNOGNOG293968.
HOVERGENHBG055071.
InParanoidQ13214.
KOK06840.
OrthoDBEOG7X6KZG.

Gene expression databases

CleanExHS_SEMA3B.
GenevestigatorQ13214.

Family and domain databases

Gene3D2.130.10.10. 1 hit.
2.60.40.10. 1 hit.
InterProIPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003599. Ig_sub.
IPR016201. Plexin-like_fold.
IPR002165. Plexin_repeat.
IPR001627. Semap_dom.
IPR027231. Semaphorin.
IPR015943. WD40/YVTN_repeat-like_dom.
[Graphical view]
PANTHERPTHR11036. PTHR11036. 1 hit.
PfamPF01437. PSI. 1 hit.
PF01403. Sema. 1 hit.
[Graphical view]
SMARTSM00409. IG. 1 hit.
SM00423. PSI. 1 hit.
SM00630. Sema. 1 hit.
[Graphical view]
SUPFAMSSF101912. SSF101912. 1 hit.
SSF103575. SSF103575. 1 hit.
PROSITEPS50835. IG_LIKE. 1 hit.
PS51004. SEMA. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

ChiTaRSSEMA3B. human.
GeneWikiSEMA3B.
GenomeRNAi7869.
NextBio30317.
PROQ13214.
SOURCESearch...

Entry information

Entry nameSEM3B_HUMAN
AccessionPrimary (citable) accession number: Q13214
Secondary accession number(s): Q6GU46 expand/collapse secondary AC list , Q8TB71, Q8TDV7, Q93018, Q96GX0
Entry history
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: November 1, 1996
Last modified: March 19, 2014
This is version 123 of the entry and version 1 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