CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-000208
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 Semaphorin-4D 
Protein Synonyms/Alias
 M-Sema G; Semaphorin-C-like 2; Semaphorin-J; Sema J; CD100 
Gene Name
 Sema4d 
Gene Synonyms/Alias
 Semacl2; Semaj 
Created Date
 July 27, 2013 
Organism
 Mus musculus (Mouse) 
NCBI Taxa ID
 10090 
Lysine Modification
Position
Peptide
Type
References
774RSALLLGKKTPKSDFubiquitination[1]
778LLGKKTPKSDFSDLEubiquitination[1]
Reference
 [1] Proteomic analyses reveal divergent ubiquitylation site patterns in murine tissues.
 Wagner SA, Beli P, Weinert BT, Schölz C, Kelstrup CD, Young C, Nielsen ML, Olsen JV, Brakebusch C, Choudhary C.
 Mol Cell Proteomics. 2012 Dec;11(12):1578-85. [PMID: 22790023] 
Functional Description
 Cell surface receptor for PLXN1B and PLXNB2 that plays an important role in cell-cell signaling. Promotes reorganization of the actin cytoskeleton and plays a role in axonal growth cone guidance in the developing central nervous system. Regulates dendrite and axon branching and morphogenesis. Promotes the migration of cerebellar granule cells and of endothelial cells. Plays a role in the immune system; induces B-cells to aggregate and improves their viability (in vitro). Promotes signaling via SRC and PTK2B/PYK2, which then mediates activation of phosphatidylinositol 3-kinase and of the AKT1 signaling cascade. Interaction with PLXNB1 mediates activation of RHOA (By similarity). 
Sequence Annotation
 DOMAIN 24 500 Sema.
 DOMAIN 502 551 PSI.
 DOMAIN 555 636 Ig-like C2-type.
 CARBOHYD 49 49 N-linked (GlcNAc...) (Potential).
 CARBOHYD 77 77 N-linked (GlcNAc...).
 CARBOHYD 139 139 N-linked (GlcNAc...) (Potential).
 CARBOHYD 191 191 N-linked (GlcNAc...) (Potential).
 CARBOHYD 379 379 N-linked (GlcNAc...).
 CARBOHYD 419 419 N-linked (GlcNAc...).
 CARBOHYD 613 613 N-linked (GlcNAc...) (Potential).
 CARBOHYD 632 632 N-linked (GlcNAc...) (Potential).
 DISULFID 97 108 By similarity.
 DISULFID 126 135 By similarity.
 DISULFID 257 370 By similarity.
 DISULFID 281 326 By similarity.
 DISULFID 503 520 By similarity.
 DISULFID 509 553 By similarity.
 DISULFID 512 529 By similarity.
 DISULFID 576 624 By similarity.  
Keyword
 Cell membrane; Complete proteome; Developmental protein; Differentiation; Disulfide bond; Glycoprotein; Immunoglobulin domain; Membrane; Neurogenesis; Reference proteome; Signal; Transmembrane; Transmembrane helix. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 861 AA 
Protein Sequence
MRMCAPVRGL FLALVVVLRT AVAFAPVPRL TWEHGEVGLV QFHKPGIFNY SALLMSEDKD 60
TLYVGAREAV FAVNALNISE KQHEVYWKVS EDKKSKCAEK GKSKQTECLN YIRVLQPLSS 120
TSLYVCGTNA FQPTCDHLNL TSFKFLGKSE DGKGRCPFDP AHSYTSVMVG GELYSGTSYN 180
FLGSEPIISR NSSHSPLRTE YAIPWLNEPS FVFADVIQKS PDGPEGEDDK VYFFFTEVSV 240
EYEFVFKLMI PRVARVCKGD QGGLRTLQKK WTSFLKARLI CSKPDSGLVF NILQDVFVLR 300
APGLKEPVFY AVFTPQLNNV GLSAVCAYTL ATVEAVFSRG KYMQSATVEQ SHTKWVRYNG 360
PVPTPRPGAC IDSEARAANY TSSLNLPDKT LQFVKDHPLM DDSVTPIDNR PKLIKKDVNY 420
TQIVVDRTQA LDGTFYDVMF ISTDRGALHK AVILTKEVHV IEETQLFRDS EPVLTLLLSS 480
KKGRKFVYAG SNSGVVQAPL AFCEKHGSCE DCVLARDPYC AWSPAIKACV TLHQEEASSR 540
GWIQDMSGDT SSCLDKSKES FNQHFFKHGG TAELKCFQKS NLARVVWKFQ NGELKAASPK 600
YGFVGRKHLL IFNLSDGDSG VYQCLSEERV RNKTVSQLLA KHVLEVKMVP RTPPSPTSED 660
AQTEGSKITS KMPVASTQGS SPPTPALWAT SPRAATLPPK SSSGTSCEPK MVINTVPQLH 720
SEKTVYLKSS DNRLLMSLLL FIFVLFLCLF SYNCYKGYLP GQCLKFRSAL LLGKKTPKSD 780
FSDLEQSVKE TLVEPGSFSQ QNGDHPKPAL DTGYETEQDT ITSKVPTDRE DSQRIDELSA 840
RDKPFDVKCE LKFADSDADG D 861 
Gene Ontology
 GO:0005615; C:extracellular space; IDA:BHF-UCL.
 GO:0005887; C:integral to plasma membrane; IEA:Compara.
 GO:0016020; C:membrane; TAS:BHF-UCL.
 GO:0004888; F:transmembrane signaling receptor activity; ISS:UniProtKB.
 GO:0070486; P:leukocyte aggregation; ISS:UniProtKB.
 GO:0010693; P:negative regulation of alkaline phosphatase activity; IDA:BHF-UCL.
 GO:0045668; P:negative regulation of osteoblast differentiation; IMP:BHF-UCL.
 GO:0050732; P:negative regulation of peptidyl-tyrosine phosphorylation; IDA:BHF-UCL.
 GO:0000122; P:negative regulation of transcription from RNA polymerase II promoter; IDA:BHF-UCL.
 GO:0043931; P:ossification involved in bone maturation; IMP:BHF-UCL.
 GO:0030335; P:positive regulation of cell migration; IDA:BHF-UCL.
 GO:0048672; P:positive regulation of collateral sprouting; ISS:UniProtKB.
 GO:0050731; P:positive regulation of peptidyl-tyrosine phosphorylation; IDA:BHF-UCL.
 GO:0014068; P:positive regulation of phosphatidylinositol 3-kinase cascade; ISS:UniProtKB.
 GO:0032321; P:positive regulation of Rho GTPase activity; IMP:BHF-UCL.
 GO:0008360; P:regulation of cell shape; ISS:UniProtKB.
 GO:0048814; P:regulation of dendrite morphogenesis; ISS:UniProtKB.
 GO:1900220; P:semaphorin-plexin signaling pathway involved in bone trabecula morphogenesis; IMP:BHF-UCL. 
Interpro
 IPR007110; Ig-like_dom.
 IPR013783; Ig-like_fold.
 IPR003599; Ig_sub.
 IPR003659; Plexin-like.
 IPR016201; Plexin-like_fold.
 IPR002165; Plexin_repeat.
 IPR027231; Semaphorin.
 IPR001627; Semaphorin/CD100_Ag.
 IPR015943; WD40/YVTN_repeat-like_dom. 
Pfam
 PF01437; PSI
 PF01403; Sema 
SMART
 SM00409; IG
 SM00423; PSI
 SM00630; Sema 
PROSITE
 PS50835; IG_LIKE
 PS51004; SEMA 
PRINTS