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Protein

Semaphorin-5A

Gene

Sema5a

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

Functioni

Bifunctional axonal guidance cue regulated by sulfated proteoglycans; attractive effects result from interactions with heparan sulfate proteoglycans (HSPGs), while the inhibitory effects depend on interactions with chondroitin sulfate proteoglycans (CSPGs). Ligand for receptor PLXNB3. In glioma cells, SEMA5A stimulation of PLXNB3 results in the disassembly of F-actin stress fibers, disruption of focal adhesions and cellular collapse as well as inhibition of cell migration and invasion through ARHGDIA-mediated inactivation of RAC1. May promote angiogenesis by increasing endothelial cell proliferation and migration and inhibiting apoptosis.By similarity2 Publications

GO - Molecular functioni

  • chemorepellent activity Source: GO_Central
  • chondroitin sulfate proteoglycan binding Source: UniProtKB
  • heparan sulfate proteoglycan binding Source: UniProtKB
  • semaphorin receptor binding Source: UniProtKB
  • syndecan binding Source: UniProtKB

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Developmental protein

Keywords - Biological processi

Differentiation, Neurogenesis

Enzyme and pathway databases

ReactomeiR-RNO-416700. Other semaphorin interactions.

Names & Taxonomyi

Protein namesi
Recommended name:
Semaphorin-5ABy similarity
Alternative name(s):
Semaphorin-F
Short name:
Sema F
Gene namesi
Name:Sema5aImported
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 2

Organism-specific databases

RGDi1308650. Sema5a.

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transmembranei969 – 989HelicalSequence analysisAdd BLAST21

GO - Cellular componenti

  • integral component of membrane Source: GO_Central
  • membrane Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 22Sequence analysisAdd BLAST22
ChainiPRO_000042023623 – 1074Semaphorin-5ASequence analysisAdd BLAST1052

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Disulfide bondi104 ↔ 114Sequence analysis
Disulfide bondi131 ↔ 140Sequence analysis
Glycosylationi147N-linked (GlcNAc...)Sequence analysis1
Glycosylationi168N-linked (GlcNAc...)Sequence analysis1
Glycosylationi227N-linked (GlcNAc...)Sequence analysis1
Disulfide bondi254 ↔ 357Sequence analysis
Glycosylationi277N-linked (GlcNAc...)Sequence analysis1
Disulfide bondi278 ↔ 320Sequence analysis
Glycosylationi323N-linked (GlcNAc...)Sequence analysis1
Glycosylationi367N-linked (GlcNAc...)Sequence analysis1
Glycosylationi536N-linked (GlcNAc...)Sequence analysis1
Glycosylationi591N-linked (GlcNAc...)Sequence analysis1
Disulfide bondi607 ↔ 644Sequence analysis
Disulfide bondi611 ↔ 650Sequence analysis
Disulfide bondi622 ↔ 634Sequence analysis
Disulfide bondi665 ↔ 696Sequence analysis
Disulfide bondi669 ↔ 701Sequence analysis
Disulfide bondi680 ↔ 686Sequence analysis
Glycosylationi717N-linked (GlcNAc...)Sequence analysis1
Disulfide bondi796 ↔ 833Sequence analysis
Disulfide bondi800 ↔ 838Sequence analysis
Disulfide bondi811 ↔ 823Sequence analysis
Disulfide bondi853 ↔ 890Sequence analysis
Disulfide bondi857 ↔ 895Sequence analysis
Disulfide bondi868 ↔ 880Sequence analysis
Glycosylationi898N-linked (GlcNAc...)Sequence analysis1
Glycosylationi933N-linked (GlcNAc...)Sequence analysis1
Glycosylationi1015N-linked (GlcNAc...)Sequence analysis1

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

PaxDbiD3ZTD8.

Expressioni

Developmental stagei

At E15.5, detected in axons extending from habenula nucleus explants (at protein level). Expressed in the habenula nucleus at E13.5 and E15.5, and in the prosomere 2 adjacent to the fasciculus retroflexus at E15.5.1 Publication

Gene expression databases

BgeeiENSRNOG00000011977.
ExpressionAtlasiD3ZTD8. baseline and differential.
GenevisibleiD3ZTD8. RN.

Interactioni

Subunit structurei

Binds PLXNB3.By similarity

GO - Molecular functioni

  • semaphorin receptor binding Source: UniProtKB
  • syndecan binding Source: UniProtKB

Protein-protein interaction databases

BioGridi259574. 2 interactors.
STRINGi10116.ENSRNOP00000016506.

Structurei

3D structure databases

ProteinModelPortaliD3ZTD8.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini35 – 484SemaPROSITE-ProRule annotationAdd BLAST450
Domaini486 – 533PSISequence analysisAdd BLAST48
Domaini540 – 593TSP type-1 1PROSITE-ProRule annotationAdd BLAST54
Domaini595 – 651TSP type-1 2PROSITE-ProRule annotationAdd BLAST57
Domaini653 – 702TSP type-1 3PROSITE-ProRule annotationAdd BLAST50
Domaini784 – 839TSP type-1 4PROSITE-ProRule annotationAdd BLAST56
Domaini841 – 896TSP type-1 5PROSITE-ProRule annotationAdd BLAST56
Domaini897 – 944TSP type-1 6PROSITE-ProRule annotationAdd BLAST48

Sequence similaritiesi

Contains 1 PSI domain.Sequence analysis
Contains 1 Sema domain.PROSITE-ProRule annotation
Contains 6 TSP type-1 domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG3611. Eukaryota.
ENOG410XQZC. LUCA.
GeneTreeiENSGT00760000119134.
InParanoidiD3ZTD8.
KOiK06841.
PhylomeDBiD3ZTD8.
TreeFamiTF329951.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
InterProiIPR016201. PSI.
IPR001627. Semap_dom.
IPR027231. Semaphorin.
IPR000884. TSP1_rpt.
IPR015943. WD40/YVTN_repeat-like_dom.
[Graphical view]
PANTHERiPTHR11036. PTHR11036. 4 hits.
PfamiPF01403. Sema. 1 hit.
PF00090. TSP_1. 5 hits.
[Graphical view]
SMARTiSM00423. PSI. 1 hit.
SM00630. Sema. 1 hit.
SM00209. TSP1. 6 hits.
[Graphical view]
SUPFAMiSSF101912. SSF101912. 1 hit.
SSF82895. SSF82895. 6 hits.
PROSITEiPS51004. SEMA. 1 hit.
PS50092. TSP1. 6 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

D3ZTD8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKGACILAWL FSSLGVWRLA RPETQDPAKC QRAEHPVVSY KEIGPWLREF
60 70 80 90 100
RAENAVDFSR LTFDPGQKEL VVGARNYLFR LQLEDLSLIQ AVQWECDEAT
110 120 130 140 150
KKACYSKGKS KEECQNYIRV LLVGGDRLFT CGTNAFTPVC TIRSLSNLTE
160 170 180 190 200
IHDQISGMAR CPYSPQHNST ALLTASGELY AATAMDFPGR DPAIYRSLGT
210 220 230 240 250
LPPLRTAQYN SKWLNEPNFV SSYDIGNFTY FFFRENAVEH DCGKTVFSRA
260 270 280 290 300
ARVCKNDIGG RFLLEDTWTT FMKARLNCSR PGEVPFYYNE LQSTFFLPEL
310 320 330 340 350
DLIYGIFTTN VNSIAASAVC VFNLSAISQA FNGPFKYQEN SRSAWLPYPN
360 370 380 390 400
PNPNFQCGTM DQGLYVNLTE RNLQDAQKFI LMHEVVQPVT TVPSFMEDNS
410 420 430 440 450
RFSHVAVDVV QGRDTLVHII YLATDYGTIK KVRAPLSQSS GSCLLEEIEL
460 470 480 490 500
FPERKSEPIR SLKILHSQSV LFVGLQEHVV KIPLKRCHFH QTRGACIGAQ
510 520 530 540 550
DPYCGWDAVM KKCTSLEESL SMTQWDQSVP TCPTRNLTVD GSFGPWSPWT
560 570 580 590 600
PCTHTDGTAV GSCLCRSRSC DSPAPQCGGW QCEGPRMEIT NCSRNGGWTP
610 620 630 640 650
WTSWSPCSTT CGIGFQVRQR SCSNPTPRHG GRVCVGQNRE ERYCNEHLLC
660 670 680 690 700
PPHVFWTGWG PWERCTAQCG GGIQARRRTC ENGPDCAGCN VEYQPCNTNA
710 720 730 740 750
CPELKKTTPW TPWTPVNISD NGGHYEQRFR YTCKARLPDP NLLEVGRQRI
760 770 780 790 800
EMRYCSSDGT SGCSTDGLSG DFLRAGRYSA HTVNGAWSAW TSWSQCSRDC
810 820 830 840 850
SRGIRNRKRV CNNPEPKYGG MPCLGPSLEF QECNILPCPV DGVWSCWSSW
860 870 880 890 900
SKCSATCGGG HYMRTRSCTN PAPAYGGDIC LGLHTEEALC NTQTCPENWS
910 920 930 940 950
EWSEWSVCDA SGTQVRTRQC ILLFPVGSQC SGNTTESRPC VFDSNFIPEV
960 970 980 990 1000
SVARSSSVEE KRCGEFNMFH MMAVGLSSSI LGCLLTLLVY TYCQRYQQQS
1010 1020 1030 1040 1050
HDATVIHPVS PAALNSSITN HINKLDKYDS VEAIKAFNKN NLILEERNKY
1060 1070
FNPHLTGKTY SNAYFTDLNN YDEY
Length:1,074
Mass (Da):120,378
Last modified:April 20, 2010 - v1
Checksum:iBFFBCEB5F9084FF7
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CH473992 Genomic DNA. Translation: EDL82657.1.
RefSeqiNP_001101129.1. NM_001107659.2.
XP_017446322.1. XM_017590833.1.
UniGeneiRn.14619.

Genome annotation databases

EnsembliENSRNOT00000016506; ENSRNOP00000016506; ENSRNOG00000011977.
GeneIDi310207.
KEGGirno:310207.
UCSCiRGD:1308650. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CH473992 Genomic DNA. Translation: EDL82657.1.
RefSeqiNP_001101129.1. NM_001107659.2.
XP_017446322.1. XM_017590833.1.
UniGeneiRn.14619.

3D structure databases

ProteinModelPortaliD3ZTD8.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi259574. 2 interactors.
STRINGi10116.ENSRNOP00000016506.

Proteomic databases

PaxDbiD3ZTD8.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000016506; ENSRNOP00000016506; ENSRNOG00000011977.
GeneIDi310207.
KEGGirno:310207.
UCSCiRGD:1308650. rat.

Organism-specific databases

CTDi9037.
RGDi1308650. Sema5a.

Phylogenomic databases

eggNOGiKOG3611. Eukaryota.
ENOG410XQZC. LUCA.
GeneTreeiENSGT00760000119134.
InParanoidiD3ZTD8.
KOiK06841.
PhylomeDBiD3ZTD8.
TreeFamiTF329951.

Enzyme and pathway databases

ReactomeiR-RNO-416700. Other semaphorin interactions.

Miscellaneous databases

PROiD3ZTD8.

Gene expression databases

BgeeiENSRNOG00000011977.
ExpressionAtlasiD3ZTD8. baseline and differential.
GenevisibleiD3ZTD8. RN.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
InterProiIPR016201. PSI.
IPR001627. Semap_dom.
IPR027231. Semaphorin.
IPR000884. TSP1_rpt.
IPR015943. WD40/YVTN_repeat-like_dom.
[Graphical view]
PANTHERiPTHR11036. PTHR11036. 4 hits.
PfamiPF01403. Sema. 1 hit.
PF00090. TSP_1. 5 hits.
[Graphical view]
SMARTiSM00423. PSI. 1 hit.
SM00630. Sema. 1 hit.
SM00209. TSP1. 6 hits.
[Graphical view]
SUPFAMiSSF101912. SSF101912. 1 hit.
SSF82895. SSF82895. 6 hits.
PROSITEiPS51004. SEMA. 1 hit.
PS50092. TSP1. 6 hits.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiSEM5A_RAT
AccessioniPrimary (citable) accession number: D3ZTD8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 28, 2012
Last sequence update: April 20, 2010
Last modified: November 30, 2016
This is version 52 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.