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Protein

Semaphorin-6B

Gene

Sema6b

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

GO - Molecular functioni

  • chemorepellent activity Source: GO_Central
  • semaphorin receptor binding Source: MGI

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Developmental protein

Keywords - Biological processi

Differentiation, Neurogenesis

Names & Taxonomyi

Protein namesi
Recommended name:
Semaphorin-6B
Alternative name(s):
Semaphorin VIB
Short name:
Sema VIB
Semaphorin-N
Short name:
Sema N
Gene namesi
Name:Sema6b
Synonyms:Seman
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 17

Organism-specific databases

MGIiMGI:1202889. Sema6b.

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini27 – 605ExtracellularSequence analysisAdd BLAST579
Transmembranei606 – 626HelicalSequence analysisAdd BLAST21
Topological domaini627 – 886CytoplasmicSequence analysisAdd BLAST260

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 26Sequence analysisAdd BLAST26
ChainiPRO_000003234227 – 886Semaphorin-6BAdd BLAST860

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi75N-linked (GlcNAc...)Sequence analysis1
Disulfide bondi117 ↔ 127PROSITE-ProRule annotation
Disulfide bondi145 ↔ 154PROSITE-ProRule annotation
Glycosylationi156N-linked (GlcNAc...)Sequence analysis1
Disulfide bondi268 ↔ 379PROSITE-ProRule annotation
Glycosylationi292N-linked (GlcNAc...)Sequence analysis1
Disulfide bondi293 ↔ 338PROSITE-ProRule annotation
Glycosylationi387N-linked (GlcNAc...)Sequence analysis1
Glycosylationi442N-linked (GlcNAc...)Sequence analysis1
Glycosylationi463N-linked (GlcNAc...)Sequence analysis1
Disulfide bondi487 ↔ 519PROSITE-ProRule annotation
Disulfide bondi528 ↔ 546PROSITE-ProRule annotation
Disulfide bondi534 ↔ 580PROSITE-ProRule annotation
Disulfide bondi538 ↔ 554PROSITE-ProRule annotation
Modified residuei667Omega-N-methylarginineCombined sources1

Keywords - PTMi

Disulfide bond, Glycoprotein, Methylation

Proteomic databases

PaxDbiO54951.
PRIDEiO54951.

PTM databases

iPTMnetiO54951.
PhosphoSitePlusiO54951.

Expressioni

Tissue specificityi

During development it is expressed in subregions of the nervous system and is particularly prominent in muscle. In adulthood, it is expressed ubiquitously.

Gene expression databases

BgeeiENSMUSG00000001227.
ExpressionAtlasiO54951. baseline and differential.
GenevisibleiO54951. MM.

Interactioni

Subunit structurei

Homodimer. Binds specifically the SH3 domain of the protooncogene C-SRC.

GO - Molecular functioni

  • semaphorin receptor binding Source: MGI

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000001256.

Structurei

3D structure databases

ProteinModelPortaliO54951.
SMRiO54951.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini32 – 525SemaPROSITE-ProRule annotationAdd BLAST494

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi751 – 754Poly-Leu4

Sequence similaritiesi

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

Keywords - Domaini

Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG3611. Eukaryota.
ENOG410XQZC. LUCA.
GeneTreeiENSGT00760000119134.
HOGENOMiHOG000232047.
HOVERGENiHBG072910.
InParanoidiO54951.
KOiK06842.
OMAiFLIMPNQ.
OrthoDBiEOG091G014B.
PhylomeDBiO54951.
TreeFamiTF316102.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
InterProiIPR001627. Semap_dom.
IPR027231. Semaphorin.
IPR015943. WD40/YVTN_repeat-like_dom.
[Graphical view]
PANTHERiPTHR11036. PTHR11036. 2 hits.
PfamiPF01403. Sema. 1 hit.
[Graphical view]
SMARTiSM00630. Sema. 1 hit.
[Graphical view]
SUPFAMiSSF101912. SSF101912. 1 hit.
PROSITEiPS51004. SEMA. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

O54951-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MWTPRVPPPR PALSFFLLLL LGVTYGLFPE EPPPLSVAPR DYLSHYPVFV
60 70 80 90 100
GSGPGRLTAA EGAEDLNIQR VLRVNRTLFI GDRDNLYQVE LEPSTSTELR
110 120 130 140 150
YQRKLTWRSN PSDIDVCRMK GKQEGECRNF VKVLLLRDES TLFVCGSNAF
160 170 180 190 200
NPICANYSMD TLQLLGDSIS GMARCPYDPK HANVALFSDG MLFTATVTDF
210 220 230 240 250
LAIDAVIYRS LGDRPTLRTV KHDSKWFKEP YFVHAVEWGS HVYFFFREIA
260 270 280 290 300
MEFNYLEKVV VSRVARVCKN DVGGSPRVLE KQWTSFLKAR LNCSVPGDSH
310 320 330 340 350
FYFNVLQAVT GVVSLGGRPV ILAVFSTPSN SIPGSAVCAF DMNQVAAVFE
360 370 380 390 400
GRFREQKSPE SIWTPVPEDQ VPRPRPGCCA APGMQYNASS ALPDEILNFV
410 420 430 440 450
KTHPLMDEAV PSLGHSPWIV RTLMRHQLTR VAVDVGAGPW GNQTIVFLGS
460 470 480 490 500
EAGTVLKFLV KPNASVSGTT GPSIFLEEFE TYRPDRCGRP SSAGEWGQRL
510 520 530 540 550
LSLELDAASG GLLAAFPRCV VRVPVARCQL YSGCMKNCIG SQDPYCGWAP
560 570 580 590 600
DGSCIFLRPG TSATFEQDVS GASTSGLGDC TGLLRASLSD DRAGLVSVNL
610 620 630 640 650
LVTSSVAAFV VGAVVSGFSV GWFVGLRERR ELARRKDKEA ILAHGGSEAV
660 670 680 690 700
LSVSRLGERR GTGPGGRGGA GGGPGGPPEA LLAPLMQNGW TKAALLHGGP
710 720 730 740 750
HDLDTGLLPT PEQTPLPQKR LPTPHPHAHA LGSRAWDHSH ALLSASASTS
760 770 780 790 800
LLLLAPARAS EQPQVPAEPG PESRLCAPRS CRASHPGDFP LTPHASPDRR
810 820 830 840 850
RVVSAPTGPL DPSVGDGLPG PWSPPATSSL RRPGPHGPPT AALRRTHTFN
860 870 880
SGEARPGGHR PRRHPPADST HLLPCGTGER TAPPVP
Length:886
Mass (Da):95,467
Last modified:June 1, 1998 - v1
Checksum:iE5F56D125CDA574D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF036585 mRNA. Translation: AAC00493.1.
CCDSiCCDS28896.1.
RefSeqiNP_001123928.1. NM_001130456.1.
NP_038690.1. NM_013662.2.
XP_006523993.1. XM_006523930.3.
UniGeneiMm.8029.

Genome annotation databases

EnsembliENSMUST00000001256; ENSMUSP00000001256; ENSMUSG00000001227.
ENSMUST00000167545; ENSMUSP00000130985; ENSMUSG00000001227.
GeneIDi20359.
KEGGimmu:20359.
UCSCiuc008dbd.2. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF036585 mRNA. Translation: AAC00493.1.
CCDSiCCDS28896.1.
RefSeqiNP_001123928.1. NM_001130456.1.
NP_038690.1. NM_013662.2.
XP_006523993.1. XM_006523930.3.
UniGeneiMm.8029.

3D structure databases

ProteinModelPortaliO54951.
SMRiO54951.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000001256.

PTM databases

iPTMnetiO54951.
PhosphoSitePlusiO54951.

Proteomic databases

PaxDbiO54951.
PRIDEiO54951.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000001256; ENSMUSP00000001256; ENSMUSG00000001227.
ENSMUST00000167545; ENSMUSP00000130985; ENSMUSG00000001227.
GeneIDi20359.
KEGGimmu:20359.
UCSCiuc008dbd.2. mouse.

Organism-specific databases

CTDi10501.
MGIiMGI:1202889. Sema6b.

Phylogenomic databases

eggNOGiKOG3611. Eukaryota.
ENOG410XQZC. LUCA.
GeneTreeiENSGT00760000119134.
HOGENOMiHOG000232047.
HOVERGENiHBG072910.
InParanoidiO54951.
KOiK06842.
OMAiFLIMPNQ.
OrthoDBiEOG091G014B.
PhylomeDBiO54951.
TreeFamiTF316102.

Miscellaneous databases

PROiO54951.
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000001227.
ExpressionAtlasiO54951. baseline and differential.
GenevisibleiO54951. MM.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
InterProiIPR001627. Semap_dom.
IPR027231. Semaphorin.
IPR015943. WD40/YVTN_repeat-like_dom.
[Graphical view]
PANTHERiPTHR11036. PTHR11036. 2 hits.
PfamiPF01403. Sema. 1 hit.
[Graphical view]
SMARTiSM00630. Sema. 1 hit.
[Graphical view]
SUPFAMiSSF101912. SSF101912. 1 hit.
PROSITEiPS51004. SEMA. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiSEM6B_MOUSE
AccessioniPrimary (citable) accession number: O54951
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: June 1, 1998
Last modified: November 30, 2016
This is version 136 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.