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Protein

Plexin-D1

Gene

Plxnd1

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

Functioni

Cell surface receptor for SEMA4A and for class 3 semaphorins, such as SEMA3A, SEMA3C and SEMA3E. Plays an important role in cell-cell signaling, and in regulating the migration of a wide spectrum of cell types. Regulates the migration of thymocytes in the medulla. Regulates endothelial cell migration. Plays an important role in ensuring the specificity of synapse formation. Mediates anti-angiogenic signaling in response to SEMA3E. Required for normal development of the heart and vasculature.6 Publications

GO - Molecular functioni

  • protein domain specific binding Source: MGI
  • semaphorin receptor activity Source: UniProtKB

GO - Biological processi

Keywordsi

Molecular functionDevelopmental protein, Receptor
Biological processAngiogenesis

Enzyme and pathway databases

ReactomeiR-MMU-416700 Other semaphorin interactions

Names & Taxonomyi

Protein namesi
Recommended name:
Plexin-D1
Gene namesi
Name:Plxnd1
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 6

Organism-specific databases

MGIiMGI:2154244 Plxnd1

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 domaini49 – 1271ExtracellularSequence analysisAdd BLAST1223
Transmembranei1272 – 1292HelicalSequence analysisAdd BLAST21
Topological domaini1293 – 1925CytoplasmicSequence analysisAdd BLAST633

Keywords - Cellular componenti

Cell membrane, Cell projection, Membrane

Pathology & Biotechi

Disruption phenotypei

Neonate lethality, due to defects in the development of the heart outflow tract and in aortic arch patterning, plus defects in peripheral vasculature. Mice also display skeletal defects, but these may be caused by defects in the embryonic vasculature.2 Publications

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 48Sequence analysisAdd BLAST48
ChainiPRO_000041589049 – 1925Plexin-D1Add BLAST1877

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Disulfide bondi106 ↔ 116PROSITE-ProRule annotation
Disulfide bondi142 ↔ 150PROSITE-ProRule annotation
Glycosylationi157N-linked (GlcNAc...) asparagineSequence analysis1
Glycosylationi226N-linked (GlcNAc...) asparagineSequence analysis1
Disulfide bondi324 ↔ 447PROSITE-ProRule annotation
Disulfide bondi347 ↔ 391PROSITE-ProRule annotation
Glycosylationi483N-linked (GlcNAc...) asparagineSequence analysis1
Disulfide bondi551 ↔ 568PROSITE-ProRule annotation
Disulfide bondi557 ↔ 602PROSITE-ProRule annotation
Disulfide bondi560 ↔ 577PROSITE-ProRule annotation
Disulfide bondi571 ↔ 583PROSITE-ProRule annotation
Disulfide bondi639 ↔ 663PROSITE-ProRule annotation
Glycosylationi967N-linked (GlcNAc...) asparagineSequence analysis1
Glycosylationi1120N-linked (GlcNAc...) asparagineSequence analysis1

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

MaxQBiQ3UH93
PaxDbiQ3UH93
PeptideAtlasiQ3UH93
PRIDEiQ3UH93

PTM databases

iPTMnetiQ3UH93
PhosphoSitePlusiQ3UH93

Expressioni

Tissue specificityi

Detected in embryonic heart and vascular endothelium, brain, dorsal root ganglia, adrenal gland, lung mesenchyme, small intestine and in the ossification centers of vertebral bodies.1 Publication

Gene expression databases

BgeeiENSMUSG00000030123 Expressed in 242 organ(s), highest expression level in pancreas
ExpressionAtlasiQ3UH93 baseline and differential
GenevisibleiQ3UH93 MM

Interactioni

Subunit structurei

Interacts with NRP1 and SEMA4A (PubMed:15239958, PubMed:17318185). Interacts with SH3BP1; they dissociate upon SEMA3E binding to PLXND1 allowing SH3BP1 to transduce downstream signal through RAC1 inactivation (By similarity).By similarity2 Publications

GO - Molecular functioni

Protein-protein interaction databases

BioGridi212439, 1 interactor
CORUMiQ3UH93
STRINGi10090.ENSMUSP00000015511

Structurei

Secondary structure

11925
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

ProteinModelPortaliQ3UH93
SMRiQ3UH93
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini49 – 548SemaPROSITE-ProRule annotationAdd BLAST500
Domaini893 – 977IPT/TIG 1Add BLAST85
Domaini983 – 1065IPT/TIG 2Add BLAST83
Domaini1071 – 1145IPT/TIG 3Add BLAST75

Sequence similaritiesi

Belongs to the plexin family.Curated

Keywords - Domaini

Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG3610 Eukaryota
ENOG410ZUMY LUCA
GeneTreeiENSGT00760000119048
HOGENOMiHOG000231376
HOVERGENiHBG053404
InParanoidiQ3UH93
KOiK06822
OMAiMEMACDY
OrthoDBiEOG091G00EK
PhylomeDBiQ3UH93
TreeFamiTF312962

Family and domain databases

Gene3Di2.130.10.10, 1 hit
2.60.40.10, 5 hits
InterProiView protein in InterPro
IPR013783 Ig-like_fold
IPR014756 Ig_E-set
IPR002909 IPT_dom
IPR031148 Plexin
IPR013548 Plexin_cytoplasmic_RasGAP_dom
IPR002165 Plexin_repeat
IPR016201 PSI
IPR008936 Rho_GTPase_activation_prot
IPR001627 Semap_dom
IPR036352 Semap_dom_sf
IPR015943 WD40/YVTN_repeat-like_dom_sf
PANTHERiPTHR22625 PTHR22625, 1 hit
PfamiView protein in Pfam
PF08337 Plexin_cytopl, 1 hit
PF01437 PSI, 2 hits
PF01403 Sema, 1 hit
PF01833 TIG, 3 hits
SMARTiView protein in SMART
SM00429 IPT, 3 hits
SM00423 PSI, 3 hits
SM00630 Sema, 1 hit
SUPFAMiSSF101912 SSF101912, 1 hit
SSF48350 SSF48350, 1 hit
SSF81296 SSF81296, 3 hits
PROSITEiView protein in PROSITE
PS51004 SEMA, 1 hit

Sequence (1+)i

Sequence statusi: Complete.

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

This entry has 1 described isoform and 1 potential isoform that is computationally mapped.Show allAlign All

Q3UH93-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MARRAAGGAP PSARAAAAVP LRPRPHSRGP GLLPLPLLLL LGAARAGALE
60 70 80 90 100
IQRRFPSPTP TNNFALDGTA GTVYLAAVNR LYQLSSANLS LEAEATVGPV
110 120 130 140 150
PDSPLCHAPQ LPQASCEHPR RLTDNYNKIL QLDPGQGLVV ACGSIYQGLC
160 170 180 190 200
QLRRRGNISA LAVSFPPAAP TAEPVTVFPS MLNVAANHPN ASTVGLVLPP
210 220 230 240 250
TSGTGGSRLL VGATYTGFGS AFFPRNRSLE DHRFENTPEI AIRSLDARGD
260 270 280 290 300
LAKLFTFDLN PSDDNILKIK QGAKEQHKLG FVRAFLHPAV PPHSAQPYAY
310 320 330 340 350
LALNSEARAG DKDSQARSLL ARICLPRGAG GDAKKLTESY IQLGLQCAGG
360 370 380 390 400
AGRGDLYSRL VSVFPAREQF FAVFERPQGA PGARNAPAAL CAFRFDDVQA
410 420 430 440 450
AIRAARTACF VEPAPDVVAV LDSVVQGTGP ACESKRNIQL QPEQLDCGAA
460 470 480 490 500
HLQHPLTILQ PLRASPVFRA PGLTAVAVAS ANNYTAVFLG TATGRLLKIS
510 520 530 540 550
LNESMQVVSR RVLTVAYGEP VHHVMQFDPM DPGYLYLMTS HQMARVKVAA
560 570 580 590 600
CEVHSTCGDC VGAADAYCGW CTLETRCTLQ QDCTNSSQPH FWTSASEGPS
610 620 630 640 650
RCPAMTVLPS EIDVHRDYTG MILQISGSLP SLSGMEMACD YGNGVRTVAR
660 670 680 690 700
VPGPAYDHQI AYCNLLPRAQ FPSFPAGQDH VTVEMSVRVK GHNIVSANFT
710 720 730 740 750
IYDCSRIGQV YPHTACTSCL STQWPCSWCI QLHSCVSNQS QCQDSPNPTS
760 770 780 790 800
PQDCPQILPS PLAPVPTGGS QDILVPLTKA TFFHGSSLEC SFGLEESFEA
810 820 830 840 850
VWANNSLVRC NQVVLHTTQK SQVFPLSLKL KGPPDRFLDS PNPMTVVVYN
860 870 880 890 900
CAMGSPDCSQ CLGREDLGHL CVWNDGCRLR GPLQPLPGTC PAPEIRAIEP
910 920 930 940 950
LSGPLDGGTL LTIRGRNLGR RLSDVAHGVW IGSVACEPLA DRYTVSEEIV
960 970 980 990 1000
CATGPAAGAF SDVVTVNVSK EGRSREQFSY VLPTVHSLEP SMGPKAGGTR
1010 1020 1030 1040 1050
ITIHGSDLNV GSMLQVLVND TDPCTDLTRT ATSITCTVPG GTLPSPVPVC
1060 1070 1080 1090 1100
VRFESRGCVH GNLTFWYMQN PVITAISPGR SPVSGGRTIT VAGERFHMVQ
1110 1120 1130 1140 1150
NVSMAVHHIG REPTFCKVLN STLITCPSPG ALSNASAPVD FFINGRAYAD
1160 1170 1180 1190 1200
EAAEELLDPA EAQRGSRFRL DYLPNPQFST AKREKWIKHH PGEPLTLVIH
1210 1220 1230 1240 1250
KEQDSLGLES HEYHIKIGQV SCDIQIISDR VIHCSVNESL GTAEGQLPIT
1260 1270 1280 1290 1300
IQVGNFNQTI ATLQLGGSET AIVVSIVICS VLLLLSVVAL FVFCTKSRRA
1310 1320 1330 1340 1350
ERYWQKTLLQ MEEMESQIRE EIRKGFAELQ TDMTDLTKEL NRSQGIPFLE
1360 1370 1380 1390 1400
YKHFVTRTFF PKCSSLYEER YVLPSKTLNS QGGSPPQETH PLLGEWNIPE
1410 1420 1430 1440 1450
HCRPSMEEGI SLFSSLLNNK HFLIVFVHAL EQQKDFAVRD RCSLASLLTI
1460 1470 1480 1490 1500
ALHGKLEYYT SIMKELLVDL IDASAAKNPK LMLRRTESVV EKMLTNWMSI
1510 1520 1530 1540 1550
CMYGCLRETV GEPFFLLLCA IKQQINKGSI DAITGKARYT LNEEWLLREN
1560 1570 1580 1590 1600
IEAKPRNLNV SFQGCGMDSL SVRAMDTDTL TQVKEKILEA FCKNVPYSQW
1610 1620 1630 1640 1650
PRAEDVDLEW FASSTQSYVL RDLDDTSVVE DGRKKLNTLA HYKIPEGASL
1660 1670 1680 1690 1700
AMSLTDKKDS TLGRVKDLDT EKYFHLVLPT DELVEPKKSH RQSHRKKVLP
1710 1720 1730 1740 1750
EIYLTRLLST KGTLQKFLDD LFKAILSIRE DKPPLAVKYF FDFLEEQAEK
1760 1770 1780 1790 1800
RGISDPDTLH IWKTNSLPLR FWVNILKNPQ FVFDIEKTDH IDACLSVIAQ
1810 1820 1830 1840 1850
AFIDACSISD LQLGKDSPTN KLLYAKEIPE YRKTVQRYYK QIQDMTPLSE
1860 1870 1880 1890 1900
QEMNAHLAEE SRKYQNEFNT NVAMAEIYKY AKRYRPQIMA ALEANPTARR
1910 1920
TQLQHKFEQV VALMENNIYE CYSEA
Length:1,925
Mass (Da):211,608
Last modified:October 11, 2005 - v1
Checksum:i7385B372DC53AF2E
GO

Computationally mapped potential isoform sequencesi

There is 1 potential isoform mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
F6T0L5F6T0L5_MOUSE
Plexin-D1
Plxnd1
233Annotation score:

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti14R → W in AAT99561 (Ref. 1) Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY688678 mRNA Translation: AAT99561.1
AK147513 mRNA Translation: BAE27964.1
AC139761 Genomic DNA No translation available.
CCDSiCCDS20448.1
RefSeqiNP_080652.2, NM_026376.3
UniGeneiMm.3085

Genome annotation databases

EnsembliENSMUST00000015511; ENSMUSP00000015511; ENSMUSG00000030123
GeneIDi67784
KEGGimmu:67784
UCSCiuc009djn.1 mouse

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY688678 mRNA Translation: AAT99561.1
AK147513 mRNA Translation: BAE27964.1
AC139761 Genomic DNA No translation available.
CCDSiCCDS20448.1
RefSeqiNP_080652.2, NM_026376.3
UniGeneiMm.3085

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5V6RX-ray2.70A/B1339-1925[»]
5V6TX-ray3.19A1339-1925[»]
ProteinModelPortaliQ3UH93
SMRiQ3UH93
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi212439, 1 interactor
CORUMiQ3UH93
STRINGi10090.ENSMUSP00000015511

PTM databases

iPTMnetiQ3UH93
PhosphoSitePlusiQ3UH93

Proteomic databases

MaxQBiQ3UH93
PaxDbiQ3UH93
PeptideAtlasiQ3UH93
PRIDEiQ3UH93

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000015511; ENSMUSP00000015511; ENSMUSG00000030123
GeneIDi67784
KEGGimmu:67784
UCSCiuc009djn.1 mouse

Organism-specific databases

CTDi23129
MGIiMGI:2154244 Plxnd1

Phylogenomic databases

eggNOGiKOG3610 Eukaryota
ENOG410ZUMY LUCA
GeneTreeiENSGT00760000119048
HOGENOMiHOG000231376
HOVERGENiHBG053404
InParanoidiQ3UH93
KOiK06822
OMAiMEMACDY
OrthoDBiEOG091G00EK
PhylomeDBiQ3UH93
TreeFamiTF312962

Enzyme and pathway databases

ReactomeiR-MMU-416700 Other semaphorin interactions

Miscellaneous databases

PROiPR:Q3UH93
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000030123 Expressed in 242 organ(s), highest expression level in pancreas
ExpressionAtlasiQ3UH93 baseline and differential
GenevisibleiQ3UH93 MM

Family and domain databases

Gene3Di2.130.10.10, 1 hit
2.60.40.10, 5 hits
InterProiView protein in InterPro
IPR013783 Ig-like_fold
IPR014756 Ig_E-set
IPR002909 IPT_dom
IPR031148 Plexin
IPR013548 Plexin_cytoplasmic_RasGAP_dom
IPR002165 Plexin_repeat
IPR016201 PSI
IPR008936 Rho_GTPase_activation_prot
IPR001627 Semap_dom
IPR036352 Semap_dom_sf
IPR015943 WD40/YVTN_repeat-like_dom_sf
PANTHERiPTHR22625 PTHR22625, 1 hit
PfamiView protein in Pfam
PF08337 Plexin_cytopl, 1 hit
PF01437 PSI, 2 hits
PF01403 Sema, 1 hit
PF01833 TIG, 3 hits
SMARTiView protein in SMART
SM00429 IPT, 3 hits
SM00423 PSI, 3 hits
SM00630 Sema, 1 hit
SUPFAMiSSF101912 SSF101912, 1 hit
SSF48350 SSF48350, 1 hit
SSF81296 SSF81296, 3 hits
PROSITEiView protein in PROSITE
PS51004 SEMA, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiPLXD1_MOUSE
AccessioniPrimary (citable) accession number: Q3UH93
Secondary accession number(s): Q68HV1
Entry historyiIntegrated into UniProtKB/Swiss-Prot: March 21, 2012
Last sequence update: October 11, 2005
Last modified: November 7, 2018
This is version 107 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

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