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Protein

Semaphorin-6B

Gene

Sema6b

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

May play a role in both peripheral and central nervous system development.

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-Z
Short name:
Sema Z
Gene namesi
Name:Sema6b
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 9

Organism-specific databases

RGDi69278. Sema6b.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini27 – 605579ExtracellularSequence analysisAdd
BLAST
Transmembranei606 – 62621HelicalSequence analysisAdd
BLAST
Topological domaini627 – 887261CytoplasmicSequence analysisAdd
BLAST

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2626Sequence analysisAdd
BLAST
Chaini27 – 887861Semaphorin-6BPRO_0000032343Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi75 – 751N-linked (GlcNAc...)Sequence analysis
Disulfide bondi117 ↔ 127PROSITE-ProRule annotation
Disulfide bondi145 ↔ 154PROSITE-ProRule annotation
Glycosylationi156 – 1561N-linked (GlcNAc...)Sequence analysis
Glycosylationi168 – 1681N-linked (GlcNAc...)Sequence analysis
Disulfide bondi268 ↔ 379PROSITE-ProRule annotation
Glycosylationi292 – 2921N-linked (GlcNAc...)Sequence analysis
Disulfide bondi293 ↔ 338PROSITE-ProRule annotation
Glycosylationi387 – 3871N-linked (GlcNAc...)Sequence analysis
Glycosylationi442 – 4421N-linked (GlcNAc...)Sequence analysis
Glycosylationi463 – 4631N-linked (GlcNAc...)Sequence analysis
Disulfide bondi487 ↔ 519PROSITE-ProRule annotation
Disulfide bondi528 ↔ 546PROSITE-ProRule annotation
Disulfide bondi534 ↔ 580PROSITE-ProRule annotation
Disulfide bondi538 ↔ 554PROSITE-ProRule annotation

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

PaxDbiO70141.
PRIDEiO70141.

PTM databases

PhosphoSiteiO70141.

Expressioni

Developmental stagei

Detected in the first branchial arch of embryonic day 11 (E11) embryo, and subsequently in the myotomes and the dorsal root ganglia in developing somites from E11.5 through E13.5, but not in the brain. However, at E15, 18, 21 and P0, highly expressed in the brain.

Gene expression databases

GenevisibleiO70141. RN.

Interactioni

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000067668.

Structurei

3D structure databases

ProteinModelPortaliO70141.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini32 – 525494SemaPROSITE-ProRule annotationAdd
BLAST

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.
HOVERGENiHBG072910.
InParanoidiO70141.
KOiK06842.
OMAiFLIMPNQ.
OrthoDBiEOG7SV0TJ.
PhylomeDBiO70141.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
InterProiIPR016201. Plexin-like_fold.
IPR001627. 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.
SSF103575. SSF103575. 1 hit.
PROSITEiPS51004. SEMA. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

O70141-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MWTPRAPPPR PALLFLLLLL LRVTHGLFPD EPPPLSVAPR DYLSHYPVFV
60 70 80 90 100
GSGPGRLTPA EGAEDLNIQR VLRVNRTLFI GDRDNLYQVE LEPSTSTELR
110 120 130 140 150
YQRKLTWRSN PSDIDVCRMK GKQEGECRNF VKVLLLRDES TLFVCGSNAF
160 170 180 190 200
NPICANYSMD TLQLLGDNIS 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 APGMQYNASN ALPDEILNFV
410 420 430 440 450
KTHPLMDEAV PSLGHSPWIV RTLIRHQLTR VAVDVGAGPW GNQTIVFLGS
460 470 480 490 500
EVGTVLKFLV KPNASVSGTT GPSIFLEEFE TYRPDRCGRS 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 GTGTGGRGGA GGGPGGPPEA LLAPLMQNGW TKAALLHGGP
710 720 730 740 750
HDLDSGLLPT PEQTPLPQKR LPTTHPHAHA LGPRAWDHSH ALLSASASTS
760 770 780 790 800
LLLLAHTRAP EQPPVPTESG PESRLCAPRS CRASHPGDFP LTPHASPDRR
810 820 830 840 850
RVVSAPTGPL DSSSVGDDLP GPWSPPATSS LRRPGPHGPP TAALRRTHTF
860 870 880
NSGEARPGGH RPRRHAPADS THLLPCGTGE RTAPPVP
Length:887
Mass (Da):95,752
Last modified:August 1, 1998 - v1
Checksum:i09543F3F202CD301
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB000776 mRNA. Translation: BAA25687.1.
RefSeqiNP_445923.1. NM_053471.2.
XP_006244411.1. XM_006244349.2.
UniGeneiRn.87343.

Genome annotation databases

EnsembliENSRNOT00000070794; ENSRNOP00000067668; ENSRNOG00000045998.
GeneIDi84609.
KEGGirno:84609.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB000776 mRNA. Translation: BAA25687.1.
RefSeqiNP_445923.1. NM_053471.2.
XP_006244411.1. XM_006244349.2.
UniGeneiRn.87343.

3D structure databases

ProteinModelPortaliO70141.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000067668.

PTM databases

PhosphoSiteiO70141.

Proteomic databases

PaxDbiO70141.
PRIDEiO70141.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000070794; ENSRNOP00000067668; ENSRNOG00000045998.
GeneIDi84609.
KEGGirno:84609.

Organism-specific databases

CTDi10501.
RGDi69278. Sema6b.

Phylogenomic databases

eggNOGiKOG3611. Eukaryota.
ENOG410XQZC. LUCA.
GeneTreeiENSGT00760000119134.
HOVERGENiHBG072910.
InParanoidiO70141.
KOiK06842.
OMAiFLIMPNQ.
OrthoDBiEOG7SV0TJ.
PhylomeDBiO70141.

Miscellaneous databases

NextBioi617260.
PROiO70141.

Gene expression databases

GenevisibleiO70141. RN.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
InterProiIPR016201. Plexin-like_fold.
IPR001627. 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.
SSF103575. SSF103575. 1 hit.
PROSITEiPS51004. SEMA. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Molecular cloning of a novel member of semaphorin family genes, semaphorin Z."
    Kikuchi K., Ishida H., Kimura T.
    Brain Res. Mol. Brain Res. 51:229-237(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Strain: Wistar.
    Tissue: Brain.

Entry informationi

Entry nameiSEM6B_RAT
AccessioniPrimary (citable) accession number: O70141
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: August 1, 1998
Last modified: May 11, 2016
This is version 99 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. 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.