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Protein

Semaphorin-6A

Gene

SEMA6A

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Cell surface receptor for PLXNA2 that plays an important role in cell-cell signaling. Required for normal granule cell migration in the developing cerebellum. Promotes reorganization of the actin cytoskeleton and plays an important role in axon guidance in the developing central nervous system. Can act as repulsive axon guidance cue. Has repulsive action towards migrating granular neurons. May play a role in channeling sympathetic axons into the sympathetic chains and controlling the temporal sequence of sympathetic target innervation (By similarity).By similarity

GO - Molecular functioni

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

GO - Biological processi

Keywordsi

Molecular functionDevelopmental protein
Biological processDifferentiation, Neurogenesis

Enzyme and pathway databases

ReactomeiR-HSA-416700 Other semaphorin interactions

Names & Taxonomyi

Protein namesi
Recommended name:
Semaphorin-6A
Alternative name(s):
Semaphorin VIA
Short name:
Sema VIA
Semaphorin-6A-1
Short name:
SEMA6A-1
Gene namesi
Name:SEMA6A
Synonyms:KIAA1368, SEMAQ
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 5

Organism-specific databases

EuPathDBiHostDB:ENSG00000092421.16
HGNCiHGNC:10738 SEMA6A
MIMi605885 gene
neXtProtiNX_Q9H2E6

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini19 – 649ExtracellularSequence analysisAdd BLAST631
Transmembranei650 – 670HelicalSequence analysisAdd BLAST21
Topological domaini671 – 1030CytoplasmicSequence analysisAdd BLAST360

Keywords - Cellular componenti

Cell membrane, Membrane

Pathology & Biotechi

Organism-specific databases

DisGeNETi57556
PharmGKBiPA35660

Polymorphism and mutation databases

BioMutaiSEMA6A
DMDMi296452903

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 18Sequence analysisAdd BLAST18
ChainiPRO_000003233919 – 1030Semaphorin-6AAdd BLAST1012

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi33N-linked (GlcNAc...) asparagineSequence analysis1
Glycosylationi49N-linked (GlcNAc...) asparagineSequence analysis1
Glycosylationi65N-linked (GlcNAc...) asparagineSequence analysis1
Disulfide bondi107 ↔ 117PROSITE-ProRule annotation
Disulfide bondi135 ↔ 144PROSITE-ProRule annotation
Disulfide bondi258 ↔ 369PROSITE-ProRule annotation
Glycosylationi282N-linked (GlcNAc...) asparagineSequence analysis1
Disulfide bondi283 ↔ 328PROSITE-ProRule annotation
Glycosylationi434N-linked (GlcNAc...) asparagineSequence analysis1
Glycosylationi461N-linked (GlcNAc...) asparagineSequence analysis1
Disulfide bondi477 ↔ 506PROSITE-ProRule annotation
Disulfide bondi515 ↔ 533PROSITE-ProRule annotation
Disulfide bondi521 ↔ 568PROSITE-ProRule annotation
Disulfide bondi525 ↔ 542PROSITE-ProRule annotation
Modified residuei698PhosphoserineCombined sources1
Modified residuei952PhosphoserineCombined sources1

Keywords - PTMi

Disulfide bond, Glycoprotein, Phosphoprotein

Proteomic databases

EPDiQ9H2E6
MaxQBiQ9H2E6
PaxDbiQ9H2E6
PeptideAtlasiQ9H2E6
PRIDEiQ9H2E6
ProteomicsDBi80536
80537 [Q9H2E6-2]

PTM databases

iPTMnetiQ9H2E6
PhosphoSitePlusiQ9H2E6

Expressioni

Gene expression databases

BgeeiENSG00000092421 Expressed in 221 organ(s), highest expression level in adrenal cortex
CleanExiHS_SEMA6A
ExpressionAtlasiQ9H2E6 baseline and differential
GenevisibleiQ9H2E6 HS

Organism-specific databases

HPAiHPA031265
HPA031267

Interactioni

Subunit structurei

Active as a homodimer or oligomer. The SEMA6A homodimer interacts with a PLXNA2 homodimer, giving rise to a heterotetramer (By similarity). Interacts with EVL.By similarity1 Publication

GO - Molecular functioni

Protein-protein interaction databases

BioGridi121612, 26 interactors
ELMiQ9H2E6
IntActiQ9H2E6, 8 interactors
STRINGi9606.ENSP00000345512

Structurei

3D structure databases

ProteinModelPortaliQ9H2E6
SMRiQ9H2E6
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini24 – 512SemaPROSITE-ProRule annotationAdd BLAST489

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi792 – 819Pro-richAdd BLAST28

Sequence similaritiesi

Belongs to the semaphorin family.Curated

Keywords - Domaini

Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG3611 Eukaryota
ENOG410XQZC LUCA
HOGENOMiHOG000232047
HOVERGENiHBG072910
InParanoidiQ9H2E6
KOiK06842
PhylomeDBiQ9H2E6
TreeFamiTF316102

Family and domain databases

Gene3Di2.130.10.10, 1 hit
InterProiView protein in InterPro
IPR002165 Plexin_repeat
IPR016201 PSI
IPR001627 Semap_dom
IPR036352 Semap_dom_sf
IPR027231 Semaphorin
IPR015943 WD40/YVTN_repeat-like_dom_sf
PANTHERiPTHR11036 PTHR11036, 1 hit
PfamiView protein in Pfam
PF01437 PSI, 1 hit
PF01403 Sema, 1 hit
SMARTiView protein in SMART
SM00423 PSI, 1 hit
SM00630 Sema, 1 hit
SUPFAMiSSF101912 SSF101912, 1 hit
PROSITEiView protein in PROSITE
PS51004 SEMA, 1 hit

Sequences (2+)i

Sequence statusi: Complete.

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

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

This entry has 2 described isoforms and 6 potential isoforms that are computationally mapped.Show allAlign All

Isoform 1 (identifier: Q9H2E6-1) [UniParc]FASTAAdd to basket

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.

« Hide
        10         20         30         40         50
MRSEALLLYF TLLHFAGAGF PEDSEPISIS HGNYTKQYPV FVGHKPGRNT
60 70 80 90 100
TQRHRLDIQM IMIMNGTLYI AARDHIYTVD IDTSHTEEIY CSKKLTWKSR
110 120 130 140 150
QADVDTCRMK GKHKDECHNF IKVLLKKNDD ALFVCGTNAF NPSCRNYKMD
160 170 180 190 200
TLEPFGDEFS GMARCPYDAK HANVALFADG KLYSATVTDF LAIDAVIYRS
210 220 230 240 250
LGESPTLRTV KHDSKWLKEP YFVQAVDYGD YIYFFFREIA VEYNTMGKVV
260 270 280 290 300
FPRVAQVCKN DMGGSQRVLE KQWTSFLKAR LNCSVPGDSH FYFNILQAVT
310 320 330 340 350
DVIRINGRDV VLATFSTPYN SIPGSAVCAY DMLDIASVFT GRFKEQKSPD
360 370 380 390 400
STWTPVPDER VPKPRPGCCA GSSSLERYAT SNEFPDDTLN FIKTHPLMDE
410 420 430 440 450
AVPSIFNRPW FLRTMVRYRL TKIAVDTAAG PYQNHTVVFL GSEKGIILKF
460 470 480 490 500
LARIGNSGFL NDSLFLEEMS VYNSEKCSYD GVEDKRIMGM QLDRASSSLY
510 520 530 540 550
VAFSTCVIKV PLGRCERYGK CKKTCIASRD PYCGWIKEGG ACSHLSPNSR
560 570 580 590 600
LTFEQDIERG NTDGLGDCHN SFVALNGHSS SLLPSTTTSD STAQEGYESR
610 620 630 640 650
GGMLDWKHLL DSPDSTDPLG AVSSHNHQDK KGVIRESYLK GHDQLVPVTL
660 670 680 690 700
LAIAVILAFV MGAVFSGITV YCVCDHRRKD VAVVQRKEKE LTHSRRGSMS
710 720 730 740 750
SVTKLSGLFG DTQSKDPKPE AILTPLMHNG KLATPGNTAK MLIKADQHHL
760 770 780 790 800
DLTALPTPES TPTLQQKRKP SRGSREWERN QNLINACTKD MPPMGSPVIP
810 820 830 840 850
TDLPLRASPS HIPSVVVLPI TQQGYQHEYV DQPKMSEVAQ MALEDQAATL
860 870 880 890 900
EYKTIKEHLS SKSPNHGVNL VENLDSLPPK VPQREASLGP PGASLSQTGL
910 920 930 940 950
SKRLEMHHSS SYGVDYKRSY PTNSLTRSHQ ATTLKRNNTN SSNSSHLSRN
960 970 980 990 1000
QSFGRGDNPP PAPQRVDSIQ VHSSQPSGQA VTVSRQPSLN AYNSLTRSGL
1010 1020 1030
KRTPSLKPDV PPKPSFAPLS TSMKPNDACT
Length:1,030
Mass (Da):114,395
Last modified:May 18, 2010 - v2
Checksum:iA1D5C9710AEC4B34
GO
Isoform 2 (identifier: Q9H2E6-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     576-576: N → NDISTPLPDNEMSYNTVY

Note: No experimental confirmation available.
Show »
Length:1,047
Mass (Da):116,336
Checksum:i76D04113274B9EED
GO

Computationally mapped potential isoform sequencesi

There are 6 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
A0A0A0MQU6A0A0A0MQU6_HUMAN
Sema domain, transmembrane domain (...
SEMA6A hCG_2028216
1,047Annotation score:
H0Y8V9H0Y8V9_HUMAN
Semaphorin-6A
SEMA6A
545Annotation score:
D6RCR0D6RCR0_HUMAN
Semaphorin-6A
SEMA6A
114Annotation score:
D6RAG9D6RAG9_HUMAN
Semaphorin-6A
SEMA6A
159Annotation score:
B3KU01B3KU01_HUMAN
cDNA FLJ39018 fis, clone NT2RP70025...
SEMA6A
457Annotation score:
E9PDV9E9PDV9_HUMAN
Semaphorin-6A
SEMA6A
409Annotation score:

Sequence cautioni

The sequence BAA92606 differs from that shown. Reason: Erroneous initiation.Curated

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_030296518Y → H2 PublicationsCorresponds to variant dbSNP:rs34966Ensembl.1
Natural variantiVAR_030297559R → H. Corresponds to variant dbSNP:rs17432496Ensembl.1
Natural variantiVAR_030298567D → E. Corresponds to variant dbSNP:rs12516652Ensembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_007113576N → NDISTPLPDNEMSYNTVY in isoform 2. Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF279656 mRNA Translation: AAG29378.1
AB037789 mRNA Translation: BAA92606.1 Different initiation.
AC008524 Genomic DNA No translation available.
AC010296 Genomic DNA No translation available.
AC027304 Genomic DNA No translation available.
CCDSiCCDS47256.1 [Q9H2E6-1]
CCDS75288.1 [Q9H2E6-2]
RefSeqiNP_001287709.1, NM_001300780.1
NP_065847.1, NM_020796.4
UniGeneiHs.156967

Genome annotation databases

EnsembliENST00000343348; ENSP00000345512; ENSG00000092421
ENST00000510263; ENSP00000424388; ENSG00000092421
GeneIDi57556
KEGGihsa:57556
UCSCiuc010jck.4 human [Q9H2E6-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF279656 mRNA Translation: AAG29378.1
AB037789 mRNA Translation: BAA92606.1 Different initiation.
AC008524 Genomic DNA No translation available.
AC010296 Genomic DNA No translation available.
AC027304 Genomic DNA No translation available.
CCDSiCCDS47256.1 [Q9H2E6-1]
CCDS75288.1 [Q9H2E6-2]
RefSeqiNP_001287709.1, NM_001300780.1
NP_065847.1, NM_020796.4
UniGeneiHs.156967

3D structure databases

ProteinModelPortaliQ9H2E6
SMRiQ9H2E6
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi121612, 26 interactors
ELMiQ9H2E6
IntActiQ9H2E6, 8 interactors
STRINGi9606.ENSP00000345512

PTM databases

iPTMnetiQ9H2E6
PhosphoSitePlusiQ9H2E6

Polymorphism and mutation databases

BioMutaiSEMA6A
DMDMi296452903

Proteomic databases

EPDiQ9H2E6
MaxQBiQ9H2E6
PaxDbiQ9H2E6
PeptideAtlasiQ9H2E6
PRIDEiQ9H2E6
ProteomicsDBi80536
80537 [Q9H2E6-2]

Protocols and materials databases

DNASUi57556
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000343348; ENSP00000345512; ENSG00000092421
ENST00000510263; ENSP00000424388; ENSG00000092421
GeneIDi57556
KEGGihsa:57556
UCSCiuc010jck.4 human [Q9H2E6-1]

Organism-specific databases

CTDi57556
DisGeNETi57556
EuPathDBiHostDB:ENSG00000092421.16
GeneCardsiSEMA6A
H-InvDBiHIX0120999
HIX0164350
HGNCiHGNC:10738 SEMA6A
HPAiHPA031265
HPA031267
MIMi605885 gene
neXtProtiNX_Q9H2E6
PharmGKBiPA35660
HUGEiSearch...
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG3611 Eukaryota
ENOG410XQZC LUCA
HOGENOMiHOG000232047
HOVERGENiHBG072910
InParanoidiQ9H2E6
KOiK06842
PhylomeDBiQ9H2E6
TreeFamiTF316102

Enzyme and pathway databases

ReactomeiR-HSA-416700 Other semaphorin interactions

Miscellaneous databases

ChiTaRSiSEMA6A human
GeneWikiiSEMA6A
GenomeRNAii57556
PROiPR:Q9H2E6
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000092421 Expressed in 221 organ(s), highest expression level in adrenal cortex
CleanExiHS_SEMA6A
ExpressionAtlasiQ9H2E6 baseline and differential
GenevisibleiQ9H2E6 HS

Family and domain databases

Gene3Di2.130.10.10, 1 hit
InterProiView protein in InterPro
IPR002165 Plexin_repeat
IPR016201 PSI
IPR001627 Semap_dom
IPR036352 Semap_dom_sf
IPR027231 Semaphorin
IPR015943 WD40/YVTN_repeat-like_dom_sf
PANTHERiPTHR11036 PTHR11036, 1 hit
PfamiView protein in Pfam
PF01437 PSI, 1 hit
PF01403 Sema, 1 hit
SMARTiView protein in SMART
SM00423 PSI, 1 hit
SM00630 Sema, 1 hit
SUPFAMiSSF101912 SSF101912, 1 hit
PROSITEiView protein in PROSITE
PS51004 SEMA, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiSEM6A_HUMAN
AccessioniPrimary (citable) accession number: Q9H2E6
Secondary accession number(s): Q9P2H9
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 11, 2003
Last sequence update: May 18, 2010
Last modified: November 7, 2018
This is version 152 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (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.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. Human chromosome 5
    Human chromosome 5: entries, gene names and cross-references to MIM
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Main funding by: National Institutes of Health

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