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Q9NPR2 (SEM4B_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 122. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (4) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Semaphorin-4B
Gene names
Name:SEMA4B
Synonyms:KIAA1745, SEMAC
ORF Names:UNQ749/PRO1480
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length832 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

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

Subcellular location

Membrane; Single-pass type I membrane protein.

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 AAQ88758.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.

The sequence AAR15707.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.

The sequence BAB15372.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.

The sequence BAB21836.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: Q9NPR2-1)

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: Q9NPR2-2)

The sequence of this isoform differs from the canonical sequence as follows:
     709-832: YWKEFLVMCT...LGSEIRDSVV → WARTQLLDLSSLYQAVATREDSASSGEIS
Note: No experimental confirmation available.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Signal peptide1 – 3838 Ref.5
Chain39 – 832794Semaphorin-4B
PRO_0000032324

Regions

Topological domain39 – 712674Extracellular Potential
Transmembrane713 – 73321Helical; Potential
Topological domain734 – 83299Cytoplasmic Potential
Domain42 – 518477Sema
Domain520 – 57455PSI
Domain599 – 65860Ig-like C2-type
Compositional bias753 – 77624Pro-rich

Amino acid modifications

Modified residue8131Phosphoserine Ref.10
Modified residue8251Phosphoserine Ref.10 Ref.11
Glycosylation641N-linked (GlcNAc...) Ref.9
Glycosylation911N-linked (GlcNAc...) Potential
Glycosylation1601N-linked (GlcNAc...) Potential
Glycosylation4051N-linked (GlcNAc...) Ref.9
Glycosylation5201N-linked (GlcNAc...) Potential
Glycosylation6251N-linked (GlcNAc...) Potential
Disulfide bond115 ↔ 126 By similarity
Disulfide bond144 ↔ 153 By similarity
Disulfide bond281 ↔ 394 By similarity
Disulfide bond305 ↔ 354 By similarity
Disulfide bond521 ↔ 538 By similarity
Disulfide bond606 ↔ 651 By similarity

Natural variations

Alternative sequence709 – 832124YWKEF…RDSVV → WARTQLLDLSSLYQAVATRE DSASSGEIS in isoform 2.
VSP_012460
Natural variant7921S → A. Ref.1 Ref.3 Ref.6 Ref.8
VAR_010758

Experimental info

Sequence conflict1601N → P in CAB98205. Ref.6
Sequence conflict5651E → K in AAH10701. Ref.8

Sequences

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

Last modified April 11, 2003. Version 3.
Checksum: 29D58C1DDD5E1C6B

FASTA83292,193
        10         20         30         40         50         60 
MGLRSWLAAP WGALPPRPPL LLLLLLLLLL QPPPPTWALS PRISLPLGSE ERPFLRFEAE 

        70         80         90        100        110        120 
HISNYTALLL SRDGRTLYVG AREALFALSS NLSFLPGGEY QELLWGADAE KKQQCSFKGK 

       130        140        150        160        170        180 
DPQRDCQNYI KILLPLSGSH LFTCGTAAFS PMCTYINMEN FTLARDEKGN VLLEDGKGRC 

       190        200        210        220        230        240 
PFDPNFKSTA LVVDGELYTG TVSSFQGNDP AISRSQSLRP TKTESSLNWL QDPAFVASAY 

       250        260        270        280        290        300 
IPESLGSLQG DDDKIYFFFS ETGQEFEFFE NTIVSRIARI CKGDEGGERV LQQRWTSFLK 

       310        320        330        340        350        360 
AQLLCSRPDD GFPFNVLQDV FTLSPSPQDW RDTLFYGVFT SQWHRGTTEG SAVCVFTMKD 

       370        380        390        400        410        420 
VQRVFSGLYK EVNRETQQWY TVTHPVPTPR PGACITNSAR ERKINSSLQL PDRVLNFLKD 

       430        440        450        460        470        480 
HFLMDGQVRS RMLLLQPQAR YQRVAVHRVP GLHHTYDVLF LGTGDGRLHK AVSVGPRVHI 

       490        500        510        520        530        540 
IEELQIFSSG QPVQNLLLDT HRGLLYAASH SGVVQVPMAN CSLYRSCGDC LLARDPYCAW 

       550        560        570        580        590        600 
SGSSCKHVSL YQPQLATRPW IQDIEGASAK DLCSASSVVS PSFVPTGEKP CEQVQFQPNT 

       610        620        630        640        650        660 
VNTLACPLLS NLATRLWLRN GAPVNASASC HVLPTGDLLL VGTQQLGEFQ CWSLEEGFQQ 

       670        680        690        700        710        720 
LVASYCPEVV EDGVADQTDE GGSVPVIIST SRVSAPAGGK ASWGADRSYW KEFLVMCTLF 

       730        740        750        760        770        780 
VLAVLLPVLF LLYRHRNSMK VFLKQGECAS VHPKTCPVVL PPETRPLNGL GPPSTPLDHR 

       790        800        810        820        830 
GYQSLSDSPP GSRVFTESEK RPLSIQDSFV EVSPVCPRPR VRLGSEIRDS VV 

« Hide

Isoform 2 [UniParc].

Checksum: 017E1684542A7047
Show »

FASTA73781,403

References

« Hide 'large scale' references
[1]"Semaphorin 4b is a novel hypoxia-induced gene over-expressed in human tumors."
White J.R., Levinson N., Lee S.R., Myers K.A., Harris R.A., Balkwill F., Beard G.L., Naylor S.
Submitted (OCT-2003) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), VARIANT ALA-792.
[2]"Prediction of the coding sequences of unidentified human genes. XIX. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro."
Nagase T., Kikuno R., Hattori A., Kondo Y., Okumura K., Ohara O.
DNA Res. 7:347-355(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
Tissue: Brain.
[3]"The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment."
Clark H.F., Gurney A.L., Abaya E., Baker K., Baldwin D.T., Brush J., Chen J., Chow B., Chui C., Crowley C., Currell B., Deuel B., Dowd P., Eaton D., Foster J.S., Grimaldi C., Gu Q., Hass P.E. expand/collapse author list , Heldens S., Huang A., Kim H.S., Klimowski L., Jin Y., Johnson S., Lee J., Lewis L., Liao D., Mark M.R., Robbie E., Sanchez C., Schoenfeld J., Seshagiri S., Simmons L., Singh J., Smith V., Stinson J., Vagts A., Vandlen R.L., Watanabe C., Wieand D., Woods K., Xie M.-H., Yansura D.G., Yi S., Yu G., Yuan J., Zhang M., Zhang Z., Goddard A.D., Wood W.I., Godowski P.J., Gray A.M.
Genome Res. 13:2265-2270(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA], VARIANT ALA-792.
[4]"Analysis of the DNA sequence and duplication history of human chromosome 15."
Zody M.C., Garber M., Sharpe T., Young S.K., Rowen L., O'Neill K., Whittaker C.A., Kamal M., Chang J.L., Cuomo C.A., Dewar K., FitzGerald M.G., Kodira C.D., Madan A., Qin S., Yang X., Abbasi N., Abouelleil A. expand/collapse author list , Arachchi H.M., Baradarani L., Birditt B., Bloom S., Bloom T., Borowsky M.L., Burke J., Butler J., Cook A., DeArellano K., DeCaprio D., Dorris L. III, Dors M., Eichler E.E., Engels R., Fahey J., Fleetwood P., Friedman C., Gearin G., Hall J.L., Hensley G., Johnson E., Jones C., Kamat A., Kaur A., Locke D.P., Madan A., Munson G., Jaffe D.B., Lui A., Macdonald P., Mauceli E., Naylor J.W., Nesbitt R., Nicol R., O'Leary S.B., Ratcliffe A., Rounsley S., She X., Sneddon K.M.B., Stewart S., Sougnez C., Stone S.M., Topham K., Vincent D., Wang S., Zimmer A.R., Birren B.W., Hood L., Lander E.S., Nusbaum C.
Nature 440:671-675(2006) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[5]"Signal peptide prediction based on analysis of experimentally verified cleavage sites."
Zhang Z., Henzel W.J.
Protein Sci. 13:2819-2824(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: PROTEIN SEQUENCE OF 39-53.
[6]The European IMAGE consortium
Submitted (JUL-2000) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 160-832 (ISOFORM 1), VARIANT ALA-792.
[7]"Complete sequencing and characterization of 21,243 full-length human cDNAs."
Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S. expand/collapse author list , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 279-832 (ISOFORM 2).
[8]"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] OF 303-832 (ISOFORM 1), VARIANT ALA-792.
Tissue: Colon and Pancreas.
[9]"Human plasma N-glycoproteome analysis by immunoaffinity subtraction, hydrazide chemistry, and mass spectrometry."
Liu T., Qian W.-J., Gritsenko M.A., Camp D.G. II, Monroe M.E., Moore R.J., Smith R.D.
J. Proteome Res. 4:2070-2080(2005) [PubMed] [Europe PMC] [Abstract]
Cited for: GLYCOSYLATION [LARGE SCALE ANALYSIS] AT ASN-64 AND ASN-405.
Tissue: Plasma.
[10]"Global, in vivo, and site-specific phosphorylation dynamics in signaling networks."
Olsen J.V., Blagoev B., Gnad F., Macek B., Kumar C., Mortensen P., Mann M.
Cell 127:635-648(2006) [PubMed] [Europe PMC] [Abstract]
Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-813 AND SER-825, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
Tissue: Cervix carcinoma.
[11]"A quantitative atlas of mitotic phosphorylation."
Dephoure N., Zhou C., Villen J., Beausoleil S.A., Bakalarski C.E., Elledge S.J., Gygi S.P.
Proc. Natl. Acad. Sci. U.S.A. 105:10762-10767(2008) [PubMed] [Europe PMC] [Abstract]
Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-825, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
Tissue: Cervix carcinoma.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AY445887 mRNA. Translation: AAR15707.1. Different initiation.
AB051532 mRNA. Translation: BAB21836.1. Different initiation.
AY358392 mRNA. Translation: AAQ88758.1. Different initiation.
AC091167 Genomic DNA. No translation available.
AL390080 mRNA. Translation: CAB98204.1.
AL390081 mRNA. Translation: CAB98205.1.
AL390082 mRNA. Translation: CAB98206.1.
AK026133 mRNA. Translation: BAB15372.1. Different initiation.
BC010701 mRNA. Translation: AAH10701.2.
BC017658 mRNA. Translation: AAH17658.1.
UniGeneHs.474935.

3D structure databases

ProteinModelPortalQ9NPR2.
SMRQ9NPR2. Positions 41-669.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING9606.ENSP00000332204.

Polymorphism databases

DMDM29840873.

Proteomic databases

PaxDbQ9NPR2.
PRIDEQ9NPR2.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000379122; ENSP00000368417; ENSG00000185033. [Q9NPR2-2]
UCSCuc002bpa.3. human. [Q9NPR2-1]

Organism-specific databases

GeneCardsGC15P090703.
HGNCHGNC:10730. SEMA4B.
HPAHPA013372.
neXtProtNX_Q9NPR2.
HUGESearch...
GenAtlasSearch...

Phylogenomic databases

eggNOGNOG241642.
HOVERGENHBG061165.
InParanoidQ9NPR2.
OrthoDBEOG7ZD1TK.
PhylomeDBQ9NPR2.

Gene expression databases

ArrayExpressQ9NPR2.
BgeeQ9NPR2.
CleanExHS_SEMA4B.
GenevestigatorQ9NPR2.

Family and domain databases

Gene3D2.130.10.10. 1 hit.
InterProIPR016201. 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]
SMARTSM00423. PSI. 1 hit.
SM00630. Sema. 1 hit.
[Graphical view]
SUPFAMSSF101912. SSF101912. 1 hit.
SSF103575. SSF103575. 1 hit.
PROSITEPS51004. SEMA. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

PROQ9NPR2.

Entry information

Entry nameSEM4B_HUMAN
AccessionPrimary (citable) accession number: Q9NPR2
Secondary accession number(s): Q6UXE3 expand/collapse secondary AC list , Q8WVP9, Q96FK5, Q9C0B8, Q9H691, Q9NPM8, Q9NPN0
Entry history
Integrated into UniProtKB/Swiss-Prot: April 27, 2001
Last sequence update: April 11, 2003
Last modified: April 16, 2014
This is version 122 of the entry and version 3 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

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 15

Human chromosome 15: entries, gene names and cross-references to MIM