UniProtKB - O95025 (SEM3D_HUMAN)
Protein
Semaphorin-3D
Gene
SEMA3D
Organism
Homo sapiens (Human)
Status
Functioni
Induces the collapse and paralysis of neuronal growth cones. Could potentially act as repulsive cues toward specific neuronal populations. Binds to neuropilin (By similarity).By similarity
GO - Molecular functioni
- chemorepellent activity Source: GO_Central
- semaphorin receptor binding Source: GO_Central
GO - Biological processi
- axon guidance Source: GO_Central
- negative chemotaxis Source: GO_Central
- negative regulation of axon extension involved in axon guidance Source: GO_Central
- neural crest cell migration Source: GO_Central
- positive regulation of cell migration Source: GO_Central
- semaphorin-plexin signaling pathway Source: GO_Central
Keywordsi
Molecular function | Developmental protein |
Biological process | Differentiation, Neurogenesis |
Enzyme and pathway databases
PathwayCommonsi | O95025 |
Names & Taxonomyi
Protein namesi | Recommended name: Semaphorin-3D |
Gene namesi | Name:SEMA3D ORF Names:UNQ760/PRO1491 |
Organismi | Homo sapiens (Human) |
Taxonomic identifieri | 9606 [NCBI] |
Taxonomic lineagei | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo |
Proteomesi |
|
Organism-specific databases
HGNCi | HGNC:10726, SEMA3D |
MIMi | 609907, gene |
neXtProti | NX_O95025 |
VEuPathDBi | HostDB:ENSG00000153993.13 |
Subcellular locationi
Extracellular region or secreted
- Secreted By similarity
Extracellular region or secreted
- extracellular space Source: GO_Central
Plasma Membrane
- integral component of plasma membrane Source: GO_Central
Keywords - Cellular componenti
SecretedPathology & Biotechi
Organism-specific databases
DisGeNETi | 223117 |
MalaCardsi | SEMA3D |
OpenTargetsi | ENSG00000153993 |
Orphaneti | 388, Hirschsprung disease |
PharmGKBi | PA35648 |
Miscellaneous databases
Pharosi | O95025, Tbio |
Genetic variation databases
BioMutai | SEMA3D |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Signal peptidei | 1 – 36 | Sequence analysisAdd BLAST | 36 | |
ChainiPRO_0000032314 | 37 – 777 | Semaphorin-3DAdd BLAST | 741 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Disulfide bondi | 117 ↔ 128 | By similarity | ||
Glycosylationi | 139 | N-linked (GlcNAc...) asparagineSequence analysis | 1 | |
Disulfide bondi | 146 ↔ 155 | By similarity | ||
Disulfide bondi | 286 ↔ 398 | By similarity | ||
Disulfide bondi | 310 ↔ 358 | By similarity | ||
Disulfide bondi | 534 ↔ 552 | By similarity | ||
Glycosylationi | 607 | N-linked (GlcNAc...) asparagineSequence analysis | 1 | |
Disulfide bondi | 665 ↔ 731 | By similarity | ||
Glycosylationi | 724 | N-linked (GlcNAc...) asparagineSequence analysis | 1 |
Keywords - PTMi
Disulfide bond, GlycoproteinProteomic databases
EPDi | O95025 |
jPOSTi | O95025 |
MassIVEi | O95025 |
PaxDbi | O95025 |
PeptideAtlasi | O95025 |
PRIDEi | O95025 |
ProteomicsDBi | 50626 |
PTM databases
GlyGeni | O95025, 3 sites |
iPTMneti | O95025 |
PhosphoSitePlusi | O95025 |
Expressioni
Gene expression databases
Bgeei | ENSG00000153993, Expressed in tendon of biceps brachii and 143 other tissues |
ExpressionAtlasi | O95025, baseline and differential |
Genevisiblei | O95025, HS |
Organism-specific databases
HPAi | ENSG00000153993, Tissue enhanced (lymphoid tissue, thyroid gland) |
Interactioni
GO - Molecular functioni
- chemorepellent activity Source: GO_Central
- semaphorin receptor binding Source: GO_Central
Protein-protein interaction databases
BioGRIDi | 128826, 3 interactors |
IntActi | O95025, 1 interactor |
STRINGi | 9606.ENSP00000284136 |
Miscellaneous databases
RNActi | O95025, protein |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 44 – 531 | SemaPROSITE-ProRule annotationAdd BLAST | 488 | |
Domaini | 533 – 585 | PSIAdd BLAST | 53 | |
Domaini | 592 – 680 | Ig-like C2-typeAdd BLAST | 89 |
Compositional bias
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Compositional biasi | 739 – 773 | Arg/Lys-rich (basic)Add BLAST | 35 |
Domaini
Strong binding to neuropilin is mediated by the carboxy third of the protein.
Sequence similaritiesi
Belongs to the semaphorin family.Curated
Keywords - Domaini
Immunoglobulin domain, SignalPhylogenomic databases
eggNOGi | KOG3611, Eukaryota |
GeneTreei | ENSGT00940000156681 |
HOGENOMi | CLU_009051_5_0_1 |
InParanoidi | O95025 |
OMAi | MADEYLY |
OrthoDBi | 297290at2759 |
PhylomeDBi | O95025 |
TreeFami | TF316102 |
Family and domain databases
CDDi | cd11252, Sema_3D, 1 hit |
Gene3Di | 2.130.10.10, 1 hit 2.60.40.10, 1 hit |
InterProi | View protein in InterPro IPR007110, Ig-like_dom IPR036179, Ig-like_dom_sf IPR013783, Ig-like_fold IPR003599, Ig_sub IPR016201, PSI IPR042582, Sema3D_Sema IPR001627, Semap_dom IPR036352, Semap_dom_sf IPR027231, Semaphorin IPR015943, WD40/YVTN_repeat-like_dom_sf |
PANTHERi | PTHR11036, PTHR11036, 1 hit |
Pfami | View protein in Pfam PF01403, Sema, 1 hit |
SMARTi | View protein in SMART SM00409, IG, 1 hit SM00423, PSI, 1 hit SM00630, Sema, 1 hit |
SUPFAMi | SSF101912, SSF101912, 1 hit SSF48726, SSF48726, 1 hit |
PROSITEi | View protein in PROSITE PS50835, IG_LIKE, 1 hit PS51004, SEMA, 1 hit |
(1+)i Sequence
Sequence statusi: Complete.
: The displayed sequence is further processed into a mature form. Sequence processingi
This entry has 1 described isoform and 1 potential isoform that is computationally mapped.Show allAlign All
O95025-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MNANKDERLK ARSQDFHLFP ALMMLSMTML FLPVTGTLKQ NIPRLKLTYK
60 70 80 90 100
DLLLSNSCIP FLGSSEGLDF QTLLLDEERG RLLLGAKDHI FLLSLVDLNK
110 120 130 140 150
NFKKIYWPAA KERVELCKLA GKDANTECAN FIRVLQPYNK THIYVCGTGA
160 170 180 190 200
FHPICGYIDL GVYKEDIIFK LDTHNLESGR LKCPFDPQQP FASVMTDEYL
210 220 230 240 250
YSGTASDFLG KDTAFTRSLG PTHDHHYIRT DISEHYWLNG AKFIGTFFIP
260 270 280 290 300
DTYNPDDDKI YFFFRESSQE GSTSDKTILS RVGRVCKNDV GGQRSLINKW
310 320 330 340 350
TTFLKARLIC SIPGSDGADT YFDELQDIYL LPTRDERNPV VYGVFTTTSS
360 370 380 390 400
IFKGSAVCVY SMADIRAVFN GPYAHKESAD HRWVQYDGRI PYPRPGTCPS
410 420 430 440 450
KTYDPLIKST RDFPDDVISF IKRHSVMYKS VYPVAGGPTF KRINVDYRLT
460 470 480 490 500
QIVVDHVIAE DGQYDVMFLG TDIGTVLKVV SISKEKWNME EVVLEELQIF
510 520 530 540 550
KHSSIILNME LSLKQQQLYI GSRDGLVQLS LHRCDTYGKA CADCCLARDP
560 570 580 590 600
YCAWDGNACS RYAPTSKRRA RRQDVKYGDP ITQCWDIEDS ISHETADEKV
610 620 630 640 650
IFGIEFNSTF LECIPKSQQA TIKWYIQRSG DEHREELKPD ERIIKTEYGL
660 670 680 690 700
LIRSLQKKDS GMYYCKAQEH TFIHTIVKLT LNVIENEQME NTQRAEHEEG
710 720 730 740 750
KVKDLLAESR LRYKDYIQIL SSPNFSLDQY CEQMWHREKR RQRNKGGPKW
760 770
KHMQEMKKKR NRRHHRDLDE LPRAVAT
Computationally mapped potential isoform sequencesi
There is 1 potential isoform mapped to this entry.BLASTAlignShow allAdd to basketC9JYT6 | C9JYT6_HUMAN | Semaphorin-3D | SEMA3D | 294 | Annotation score: |
Sequence cautioni
The sequence AAH29590 differs from that shown. Reason: Erroneous initiation.Curated
Natural variant
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Natural variantiVAR_021513 | 701 | K → Q1 PublicationCorresponds to variant dbSNP:rs7800072Ensembl. | 1 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AY358937 mRNA Translation: AAQ89296.1 AC004957 Genomic DNA No translation available. BC029590 mRNA Translation: AAH29590.1 Different initiation. |
CCDSi | CCDS34676.1 |
RefSeqi | NP_689967.2, NM_152754.2 XP_011514262.1, XM_011515960.1 XP_016867362.1, XM_017011873.1 |
Genome annotation databases
Ensembli | ENST00000284136; ENSP00000284136; ENSG00000153993 |
GeneIDi | 223117 |
KEGGi | hsa:223117 |
UCSCi | uc003uic.4, human |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AY358937 mRNA Translation: AAQ89296.1 AC004957 Genomic DNA No translation available. BC029590 mRNA Translation: AAH29590.1 Different initiation. |
CCDSi | CCDS34676.1 |
RefSeqi | NP_689967.2, NM_152754.2 XP_011514262.1, XM_011515960.1 XP_016867362.1, XM_017011873.1 |
3D structure databases
SMRi | O95025 |
ModBasei | Search... |
Protein-protein interaction databases
BioGRIDi | 128826, 3 interactors |
IntActi | O95025, 1 interactor |
STRINGi | 9606.ENSP00000284136 |
PTM databases
GlyGeni | O95025, 3 sites |
iPTMneti | O95025 |
PhosphoSitePlusi | O95025 |
Genetic variation databases
BioMutai | SEMA3D |
Proteomic databases
EPDi | O95025 |
jPOSTi | O95025 |
MassIVEi | O95025 |
PaxDbi | O95025 |
PeptideAtlasi | O95025 |
PRIDEi | O95025 |
ProteomicsDBi | 50626 |
Protocols and materials databases
Antibodypediai | 29622, 138 antibodies |
DNASUi | 223117 |
Genome annotation databases
Ensembli | ENST00000284136; ENSP00000284136; ENSG00000153993 |
GeneIDi | 223117 |
KEGGi | hsa:223117 |
UCSCi | uc003uic.4, human |
Organism-specific databases
CTDi | 223117 |
DisGeNETi | 223117 |
GeneCardsi | SEMA3D |
HGNCi | HGNC:10726, SEMA3D |
HPAi | ENSG00000153993, Tissue enhanced (lymphoid tissue, thyroid gland) |
MalaCardsi | SEMA3D |
MIMi | 609907, gene |
neXtProti | NX_O95025 |
OpenTargetsi | ENSG00000153993 |
Orphaneti | 388, Hirschsprung disease |
PharmGKBi | PA35648 |
VEuPathDBi | HostDB:ENSG00000153993.13 |
GenAtlasi | Search... |
Phylogenomic databases
eggNOGi | KOG3611, Eukaryota |
GeneTreei | ENSGT00940000156681 |
HOGENOMi | CLU_009051_5_0_1 |
InParanoidi | O95025 |
OMAi | MADEYLY |
OrthoDBi | 297290at2759 |
PhylomeDBi | O95025 |
TreeFami | TF316102 |
Enzyme and pathway databases
PathwayCommonsi | O95025 |
Miscellaneous databases
BioGRID-ORCSi | 223117, 2 hits in 871 CRISPR screens |
ChiTaRSi | SEMA3D, human |
GenomeRNAii | 223117 |
Pharosi | O95025, Tbio |
PROi | PR:O95025 |
RNActi | O95025, protein |
SOURCEi | Search... |
Gene expression databases
Bgeei | ENSG00000153993, Expressed in tendon of biceps brachii and 143 other tissues |
ExpressionAtlasi | O95025, baseline and differential |
Genevisiblei | O95025, HS |
Family and domain databases
CDDi | cd11252, Sema_3D, 1 hit |
Gene3Di | 2.130.10.10, 1 hit 2.60.40.10, 1 hit |
InterProi | View protein in InterPro IPR007110, Ig-like_dom IPR036179, Ig-like_dom_sf IPR013783, Ig-like_fold IPR003599, Ig_sub IPR016201, PSI IPR042582, Sema3D_Sema IPR001627, Semap_dom IPR036352, Semap_dom_sf IPR027231, Semaphorin IPR015943, WD40/YVTN_repeat-like_dom_sf |
PANTHERi | PTHR11036, PTHR11036, 1 hit |
Pfami | View protein in Pfam PF01403, Sema, 1 hit |
SMARTi | View protein in SMART SM00409, IG, 1 hit SM00423, PSI, 1 hit SM00630, Sema, 1 hit |
SUPFAMi | SSF101912, SSF101912, 1 hit SSF48726, SSF48726, 1 hit |
PROSITEi | View protein in PROSITE PS50835, IG_LIKE, 1 hit PS51004, SEMA, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | SEM3D_HUMAN | |
Accessioni | O95025Primary (citable) accession number: O95025 Secondary accession number(s): A6NK46, Q6UW77, Q8NCQ1 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | May 30, 2000 |
Last sequence update: | May 30, 2000 | |
Last modified: | February 10, 2021 | |
This is version 168 of the entry and version 2 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Chordata Protein Annotation Program | |
Disclaimer | Any 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
Reference proteomeDocuments
- Human chromosome 7
Human chromosome 7: entries, gene names and cross-references to MIM - Human entries with genetic variants
List of human entries with genetic variants - Human variants curated from literature reports
Index of human variants curated from literature reports - MIM cross-references
Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot - SIMILARITY comments
Index of protein domains and families