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Q13214

- SEM3B_HUMAN

UniProt

Q13214 - SEM3B_HUMAN

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Protein
Semaphorin-3B
Gene
SEMA3B, SEMA5, SEMAA
Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at transcript leveli

Functioni

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

GO - Molecular functioni

  1. receptor activity Source: InterPro
Complete GO annotation...

GO - Biological processi

  1. axon guidance Source: ProtInc
  2. cell-cell signaling Source: ProtInc
Complete GO annotation...

Names & Taxonomyi

Protein namesi
Recommended name:
Semaphorin-3B
Alternative name(s):
Sema A(V)
Semaphorin-V
Short name:
Sema V
Gene namesi
Name:SEMA3B
Synonyms:SEMA5, SEMAA
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640: Unplaced

Organism-specific databases

HGNCiHGNC:10724. SEMA3B.

Subcellular locationi

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

GO - Cellular componenti

  1. endoplasmic reticulum Source: ProtInc
  2. extracellular vesicular exosome Source: UniProt
  3. membrane Source: InterPro
Complete GO annotation...

Keywords - Cellular componenti

Endoplasmic reticulum, Secreted

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA35646.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2424 Reviewed prediction
Add
BLAST
Chaini25 – 749725Semaphorin-3B
PRO_0000032309Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi82 – 821N-linked (GlcNAc...) Reviewed prediction
Disulfide bondi102 ↔ 113 By similarity
Glycosylationi124 – 1241N-linked (GlcNAc...) Reviewed prediction
Disulfide bondi131 ↔ 140 By similarity
Disulfide bondi269 ↔ 380 By similarity
Disulfide bondi293 ↔ 340 By similarity
Glycosylationi427 – 4271N-linked (GlcNAc...) Reviewed prediction
Disulfide bondi516 ↔ 534 By similarity
Disulfide bondi644 ↔ 710 By similarity

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

MaxQBiQ13214.
PaxDbiQ13214.
PRIDEiQ13214.

Expressioni

Tissue specificityi

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

Gene expression databases

CleanExiHS_SEMA3B.
GenevestigatoriQ13214.

Interactioni

Protein-protein interaction databases

BioGridi113618. 1 interaction.
IntActiQ13214. 1 interaction.
STRINGi9606.ENSP00000389817.

Structurei

3D structure databases

ProteinModelPortaliQ13214.
SMRiQ13214. Positions 29-649.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini30 – 513484Sema
Add
BLAST
Domaini573 – 65987Ig-like C2-type
Add
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi699 – 7024Poly-Gly
Compositional biasi724 – 74421Arg-rich (basic)
Add
BLAST

Sequence similaritiesi

Belongs to the semaphorin family.
Contains 1 PSI domain.
Contains 1 Sema domain.

Keywords - Domaini

Immunoglobulin domain, Signal

Phylogenomic databases

eggNOGiNOG293968.
HOVERGENiHBG055071.
InParanoidiQ13214.
KOiK06840.
OrthoDBiEOG7X6KZG.
PhylomeDBiQ13214.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
2.60.40.10. 1 hit.
InterProiIPR007110. 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]
PANTHERiPTHR11036. PTHR11036. 1 hit.
PfamiPF01437. PSI. 1 hit.
PF01403. Sema. 1 hit.
[Graphical view]
SMARTiSM00409. IG. 1 hit.
SM00423. PSI. 1 hit.
SM00630. Sema. 1 hit.
[Graphical view]
SUPFAMiSSF101912. SSF101912. 1 hit.
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: Q13214-1) [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

MGRAGAAAVI PGLALLWAVG LGSAAPSPPR LRLSFQELQA WHGLQTFSLE    50
RTCCYQALLV DEERGRLFVG AENHVASLNL DNISKRAKKL AWPAPVEWRE 100
ECNWAGKDIG TECMNFVKLL HAYNRTHLLA CGTGAFHPTC AFVEVGHRAE 150
EPVLRLDPGR IEDGKGKSPY DPRHRAASVL VGEELYSGVA ADLMGRDFTI 200
FRSLGQRPSL RTEPHDSRWL NEPKFVKVFW IPESENPDDD KIYFFFRETA 250
VEAAPALGRL SVSRVGQICR NDVGGQRSLV NKWTTFLKAR LVCSVPGVEG 300
DTHFDQLQDV FLLSSRDHRT PLLYAVFSTS SSIFQGSAVC VYSMNDVRRA 350
FLGPFAHKEG PMHQWVSYQG RVPYPRPGMC PSKTFGTFSS TKDFPDDVIQ 400
FARNHPLMYN SVLPTGGRPL FLQVGANYTF TQIAADRVAA ADGHYDVLFI 450
GTDVGTVLKV ISVPKGSRPS AEGLLLEELH VFEDSAAVTS MQISSKRHQL 500
YVASRSAVAQ IALHRCAAHG RVCTECCLAR DPYCAWDGVA CTRFQPSAKR 550
RFRRQDVRNG DPSTLCSGDS SRPALLEHKV FGVEGSSAFL ECEPRSLQAR 600
VEWTFQRAGV TAHTQVLAEE RTERTARGLL LRRLRRRDSG VYLCAAVEQG 650
FTQPLRRLSL HVLSATQAER LARAEEAAPA APPGPKLWYR DFLQLVEPGG 700
GGSANSLRMC RPQPALQSLP LESRRKGRNR RTHAPEPRAE RGPRSATHW 749
Length:749
Mass (Da):83,122
Last modified:November 1, 1996 - v1
Checksum:i1F3B8F63F59444F3
GO
Isoform 2 (identifier: Q13214-2) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     332-332: Missing.

Note: No experimental confirmation available.

Show »
Length:748
Mass (Da):83,035
Checksum:i587C53CB65AB4656
GO

Sequence cautioni

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

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti348 – 3481R → C in a non-small cell lung cancer cell line. 1 Publication
VAR_014221
Natural varianti397 – 3971D → H in a non-small cell lung cancer cell line. 1 Publication
VAR_014222
Natural varianti415 – 4151T → I in a non-small cell lung cancer cell line. 1 Publication
Corresponds to variant rs2071203 [ dbSNP | Ensembl ].
VAR_014223

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei332 – 3321Missing in isoform 2.
VSP_023032

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti29 – 368PRLRLSFQ → HAFGSPSKV in AAC02731. 1 Publication
Sequence conflicti308 – 3081Q → RPFPAE in BAB88870. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
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.
PIRiG01856.
RefSeqiNP_001005914.1. NM_001005914.2. [Q13214-2]
NP_001276989.1. NM_001290060.1. [Q13214-1]
NP_001276990.1. NM_001290061.1.
NP_001276991.1. NM_001290062.1.
NP_001276992.1. NM_001290063.1.
NP_004627.1. NM_004636.3. [Q13214-1]
UniGeneiHs.82222.

Genome annotation databases

EnsembliENST00000575064; ENSP00000461497; ENSG00000262015. [Q13214-1]
ENST00000587144; ENSP00000465436; ENSG00000262015.
GeneIDi7869.
KEGGihsa:7869.
UCSCiuc003cyt.3. human. [Q13214-2]
uc003cyu.3. human. [Q13214-1]

Polymorphism databases

DMDMi8134673.

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
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 .
PIRi G01856.
RefSeqi NP_001005914.1. NM_001005914.2. [Q13214-2 ]
NP_001276989.1. NM_001290060.1. [Q13214-1 ]
NP_001276990.1. NM_001290061.1.
NP_001276991.1. NM_001290062.1.
NP_001276992.1. NM_001290063.1.
NP_004627.1. NM_004636.3. [Q13214-1 ]
UniGenei Hs.82222.

3D structure databases

ProteinModelPortali Q13214.
SMRi Q13214. Positions 29-649.
ModBasei Search...

Protein-protein interaction databases

BioGridi 113618. 1 interaction.
IntActi Q13214. 1 interaction.
STRINGi 9606.ENSP00000389817.

Polymorphism databases

DMDMi 8134673.

Proteomic databases

MaxQBi Q13214.
PaxDbi Q13214.
PRIDEi Q13214.

Protocols and materials databases

DNASUi 7869.
Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENST00000575064 ; ENSP00000461497 ; ENSG00000262015 . [Q13214-1 ]
ENST00000587144 ; ENSP00000465436 ; ENSG00000262015 .
GeneIDi 7869.
KEGGi hsa:7869.
UCSCi uc003cyt.3. human. [Q13214-2 ]
uc003cyu.3. human. [Q13214-1 ]

Organism-specific databases

CTDi 7869.
GeneCardsi GC03P050304.
HGNCi HGNC:10724. SEMA3B.
MIMi 601281. gene.
neXtProti NX_Q13214.
PharmGKBi PA35646.
GenAtlasi Search...

Phylogenomic databases

eggNOGi NOG293968.
HOVERGENi HBG055071.
InParanoidi Q13214.
KOi K06840.
OrthoDBi EOG7X6KZG.
PhylomeDBi Q13214.

Miscellaneous databases

ChiTaRSi SEMA3B. human.
GeneWikii SEMA3B.
GenomeRNAii 7869.
NextBioi 30317.
PROi Q13214.
SOURCEi Search...

Gene expression databases

CleanExi HS_SEMA3B.
Genevestigatori Q13214.

Family and domain databases

Gene3Di 2.130.10.10. 1 hit.
2.60.40.10. 1 hit.
InterProi IPR007110. 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 ]
PANTHERi PTHR11036. PTHR11036. 1 hit.
Pfami PF01437. PSI. 1 hit.
PF01403. Sema. 1 hit.
[Graphical view ]
SMARTi SM00409. IG. 1 hit.
SM00423. PSI. 1 hit.
SM00630. Sema. 1 hit.
[Graphical view ]
SUPFAMi SSF101912. SSF101912. 1 hit.
SSF103575. SSF103575. 1 hit.
PROSITEi PS50835. IG_LIKE. 1 hit.
PS51004. SEMA. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  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.
    , 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.

Entry informationi

Entry nameiSEM3B_HUMAN
AccessioniPrimary (citable) accession number: Q13214
Secondary accession number(s): Q6GU46
, Q8TB71, Q8TDV7, Q93018, Q96GX0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: November 1, 1996
Last modified: September 3, 2014
This is version 127 of the entry and version 1 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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