Q13214 (SEM3B_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Semaphorin-3B

Alternative name(s):
Sema A(V)
Semaphorin-V
Short name=Sema V

Gene names

Name:	SEMA3B
Synonyms:	SEMA5, SEMAA

Organism

Homo sapiens (Human) [Reference proteome]

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Primates › Haplorrhini › Simiiformes › Catarrhini › Hominoidea › Hominidae › Homininae › Homo

Protein attributes

Sequence length	749 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence 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

Keywords
Cellular component	Endoplasmic reticulum Secreted
Coding sequence diversity	Alternative splicing Polymorphism
Domain	Immunoglobulin domain Signal
PTM	Disulfide bond Glycoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	axon guidance Traceable author statement Ref.1. Source: ProtInc cell-cell signaling Traceable author statement Ref.1. Source: ProtInc
Cellular_component	endoplasmic reticulum Traceable author statement Ref.1. Source: ProtInc extracellular region Inferred from electronic annotation. Source: UniProtKB-SubCell membrane Inferred from electronic annotation. Source: InterPro
Molecular_function	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: 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 key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Signal peptide	1 – 24	24	Potential
	Chain	25 – 749	725	Semaphorin-3B		PRO_0000032309
Regions
	Domain	30 – 513	484	Sema
	Domain	573 – 659	87	Ig-like C2-type
	Compositional bias	699 – 702	4	Poly-Gly
	Compositional bias	724 – 744	21	Arg-rich (basic)
Amino acid modifications
	Glycosylation	82	1	N-linked (GlcNAc...) Potential
	Glycosylation	124	1	N-linked (GlcNAc...) Potential
	Glycosylation	427	1	N-linked (GlcNAc...) Potential
	Disulfide bond	102 ↔ 113		By similarity
	Disulfide bond	131 ↔ 140		By similarity
	Disulfide bond	269 ↔ 380		By similarity
	Disulfide bond	293 ↔ 340		By similarity
	Disulfide bond	516 ↔ 534		By similarity
	Disulfide bond	644 ↔ 710		By similarity
Natural variations
	Alternative sequence	332	1	Missing in isoform 2.		VSP_023032
	Natural variant	348	1	R → C in a non-small cell lung cancer cell line. Ref.5		VAR_014221
	Natural variant	397	1	D → H in a non-small cell lung cancer cell line. Ref.5		VAR_014222
	Natural variant	415	1	T → I in a non-small cell lung cancer cell line. Ref.5 Corresponds to variant rs2071203 [ dbSNP | Ensembl ].		VAR_014223
Experimental info
	Sequence conflict	29 – 36	8	PRLRLSFQ → HAFGSPSKV in AAC02731. Ref.3
	Sequence conflict	308	1	Q → RPFPAE in BAB88870. Ref.2

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified November 1, 1996. Version 1. Checksum: 1F3B8F63F59444F3	FASTA	749	83,122
	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
	Isoform 2 [UniParc]. Checksum: 587C53CB65AB4656	FASTA	748	83,035
	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 SIFQGSAVCV YSMNDVRRAF LGPFAHKEGP 370 380 390 400 410 420 MHQWVSYQGR VPYPRPGMCP SKTFGTFSST KDFPDDVIQF ARNHPLMYNS VLPTGGRPLF 430 440 450 460 470 480 LQVGANYTFT QIAADRVAAA DGHYDVLFIG TDVGTVLKVI SVPKGSRPSA EGLLLEELHV 490 500 510 520 530 540 FEDSAAVTSM QISSKRHQLY VASRSAVAQI ALHRCAAHGR VCTECCLARD PYCAWDGVAC 550 560 570 580 590 600 TRFQPSAKRR FRRQDVRNGD PSTLCSGDSS RPALLEHKVF GVEGSSAFLE CEPRSLQARV 610 620 630 640 650 660 EWTFQRAGVT AHTQVLAEER TERTARGLLL RRLRRRDSGV YLCAAVEQGF TQPLRRLSLH 670 680 690 700 710 720 VLSATQAERL ARAEEAAPAA PPGPKLWYRD FLQLVEPGGG GSANSLRMCR PQPALQSLPL 730 740 ESRRKGRNRR THAPEPRAER GPRSATHW

References

	« Hide 'large scale' referencesShow '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. , 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.
IPI	IPI00012283. IPI00556335.
PIR	G01856.
RefSeq	NP_001005914.1. NM_001005914.1. NP_004627.1. NM_004636.2.
UniGene	Hs.82222.
3D structure databases
ProteinModelPortal	Q13214.
ModBase	Search...
Protein-protein interaction databases
IntAct	Q13214. 1 interaction.
STRING	9606.ENSP00000389817.
Polymorphism databases
DMDM	8134673.
Proteomic databases
PaxDb	Q13214.
PRIDE	Q13214.
Protocols and materials databases
DNASU	7869.
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
Ensembl	ENST00000575064; ENSP00000461497; ENSG00000262015. ENST00000587144; ENSP00000465436; ENSG00000262015.
GeneID	7869.
KEGG	hsa:7869.
UCSC	uc003cyt.3. human. uc003cyu.3. human.
Organism-specific databases
CTD	7869.
GeneCards	GC03P050304.
HGNC	HGNC:10724. SEMA3B.
MIM	601281. gene.
neXtProt	NX_Q13214.
PharmGKB	PA35646.
GenAtlas	Search...
Phylogenomic databases
eggNOG	NOG293968.
HOVERGEN	HBG055071.
InParanoid	Q13214.
KO	K06840.
Gene expression databases
CleanEx	HS_SEMA3B.
Genevestigator	Q13214.
GermOnline	ENSG00000012171. Homo sapiens.
Family and domain databases
Gene3D	2.130.10.10. 1 hit. 2.60.40.10. 1 hit.
InterPro	IPR007110. Ig-like_dom. IPR013783. Ig-like_fold. IPR003599. Ig_sub. IPR003659. Plexin-like. IPR016201. Plexin-like_fold. IPR002165. Plexin_repeat. IPR027231. Semaphorin. IPR001627. Semaphorin/CD100_Ag. IPR015943. WD40/YVTN_repeat-like_dom. [Graphical view]
PANTHER	PTHR11036. PTHR11036. 1 hit.
Pfam	PF01437. PSI. 1 hit. PF01403. Sema. 1 hit. [Graphical view]
SMART	SM00409. IG. 1 hit. SM00423. PSI. 1 hit. SM00630. Sema. 1 hit. [Graphical view]
SUPFAM	SSF103575. Plexin-like_fold. 1 hit. SSF101912. Sema. 1 hit.
PROSITE	PS50835. IG_LIKE. 1 hit. PS51004. SEMA. 1 hit. [Graphical view]
ProtoNet	Search...
Other
ChiTaRS	SEMA3B. human.
GenomeRNAi	7869.
NextBio	30317.
SOURCE	Search...

Entry information

Entry name

SEM3B_HUMAN

Accession

Primary (citable) accession number: Q13214
Secondary accession number(s): Q6GU46 , Q8TB71, Q8TDV7, Q93018, Q96GX0

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 30, 2000
Last sequence update:	November 1, 1996
Last modified:	May 1, 2013
This is version 115 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program

Disclaimer

Any 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.