CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-022007
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 Reticulon-4 
Protein Synonyms/Alias
 Foocen; Neurite outgrowth inhibitor; Nogo protein; Neuroendocrine-specific protein; NSP; Neuroendocrine-specific protein C homolog; RTN-x; Reticulon-5 
Gene Name
 RTN4 
Gene Synonyms/Alias
 KIAA0886; NOGO; My043; SP1507 
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
58ELEVLERKPAAGLSAubiquitination[1]
352ELPTALTKLVKEDEVubiquitination[2, 3]
364DEVVSSEKAKDSFNEubiquitination[2, 3]
1066GVIQAIQKSDEGHPFubiquitination[1]
1090ISEELVQKYSNSALGubiquitination[1]
1104GHVNCTIKELRRLFLacetylation[4]
1104GHVNCTIKELRRLFLubiquitination[2, 3, 5, 6]
1171HYLGLANKNVKDAMAubiquitination[1, 6]
1174GLANKNVKDAMAKIQubiquitination[1]
1179NVKDAMAKIQAKIPGubiquitination[1]
1183AMAKIQAKIPGLKRKubiquitination[6]
Reference
 [1] Systematic and quantitative assessment of the ubiquitin-modified proteome.
 Kim W, Bennett EJ, Huttlin EL, Guo A, Li J, Possemato A, Sowa ME, Rad R, Rush J, Comb MJ, Harper JW, Gygi SP.
 Mol Cell. 2011 Oct 21;44(2):325-40. [PMID: 21906983]
 [2] A proteome-wide, quantitative survey of in vivo ubiquitylation sites reveals widespread regulatory roles.
 Wagner SA, Beli P, Weinert BT, Nielsen ML, Cox J, Mann M, Choudhary C.
 Mol Cell Proteomics. 2011 Oct;10(10):M111.013284. [PMID: 21890473]
 [3] hCKSAAP_UbSite: improved prediction of human ubiquitination sites by exploiting amino acid pattern and properties.
 Chen Z, Zhou Y, Song J, Zhang Z.
 Biochim Biophys Acta. 2013 Aug;1834(8):1461-7. [PMID: 23603789]
 [4] Lysine acetylation targets protein complexes and co-regulates major cellular functions.
 Choudhary C, Kumar C, Gnad F, Nielsen ML, Rehman M, Walther TC, Olsen JV, Mann M.
 Science. 2009 Aug 14;325(5942):834-40. [PMID: 19608861]
 [5] Systems-wide analysis of ubiquitylation dynamics reveals a key role for PAF15 ubiquitylation in DNA-damage bypass.
 Povlsen LK, Beli P, Wagner SA, Poulsen SL, Sylvestersen KB, Poulsen JW, Nielsen ML, Bekker-Jensen S, Mailand N, Choudhary C.
 Nat Cell Biol. 2012 Oct;14(10):1089-98. [PMID: 23000965]
 [6] Refined preparation and use of anti-diglycine remnant (K-ε-GG) antibody enables routine quantification of 10,000s of ubiquitination sites in single proteomics experiments.
 Udeshi ND, Svinkina T, Mertins P, Kuhn E, Mani DR, Qiao JW, Carr SA.
 Mol Cell Proteomics. 2013 Mar;12(3):825-31. [PMID: 23266961
Functional Description
 Developmental neurite growth regulatory factor with a role as a negative regulator of axon-axon adhesion and growth, and as a facilitator of neurite branching. Regulates neurite fasciculation, branching and extension in the developing nervous system. Involved in down-regulation of growth, stabilization of wiring and restriction of plasticity in the adult CNS. Regulates the radial migration of cortical neurons via an RTN4R-LINGO1 containing receptor complex (By similarity). Isoform 2 reduces the anti-apoptotic activity of Bcl-xl and Bcl-2. This is likely consecutive to their change in subcellular location, from the mitochondria to the endoplasmic reticulum, after binding and sequestration. Isoform 2 and isoform 3 inhibit BACE1 activity and amyloid precursor protein processing. 
Sequence Annotation
 DOMAIN 1005 1192 Reticulon.
 MOD_RES 1 1 N-acetylmethionine.
 MOD_RES 7 7 Phosphoserine.
 MOD_RES 15 15 Phosphoserine.
 MOD_RES 107 107 Phosphoserine.
 MOD_RES 152 152 Phosphoserine (By similarity).
 MOD_RES 181 181 Phosphoserine.
 MOD_RES 182 182 Phosphoserine.
 MOD_RES 188 188 Phosphothreonine (By similarity).
 MOD_RES 361 361 Phosphoserine (By similarity).
 MOD_RES 446 446 Phosphoserine (By similarity).
 MOD_RES 860 860 Phosphoserine (By similarity).
 MOD_RES 863 863 Phosphoserine (By similarity).
 MOD_RES 889 889 Phosphotyrosine (By similarity).
 MOD_RES 1104 1104 N6-acetyllysine.  
Keyword
 3D-structure; Acetylation; Alternative splicing; Complete proteome; Direct protein sequencing; Endoplasmic reticulum; Membrane; Neurogenesis; Phosphoprotein; Polymorphism; Reference proteome; Transmembrane; Transmembrane helix. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 1192 AA 
Protein Sequence
MEDLDQSPLV SSSDSPPRPQ PAFKYQFVRE PEDEEEEEEE EEEDEDEDLE ELEVLERKPA 60
AGLSAAPVPT APAAGAPLMD FGNDFVPPAP RGPLPAAPPV APERQPSWDP SPVSSTVPAP 120
SPLSAAAVSP SKLPEDDEPP ARPPPPPPAS VSPQAEPVWT PPAPAPAAPP STPAAPKRRG 180
SSGSVDETLF ALPAASEPVI RSSAENMDLK EQPGNTISAG QEDFPSVLLE TAASLPSLSP 240
LSAASFKEHE YLGNLSTVLP TEGTLQENVS EASKEVSEKA KTLLIDRDLT EFSELEYSEM 300
GSSFSVSPKA ESAVIVANPR EEIIVKNKDE EEKLVSNNIL HNQQELPTAL TKLVKEDEVV 360
SSEKAKDSFN EKRVAVEAPM REEYADFKPF ERVWEVKDSK EDSDMLAAGG KIESNLESKV 420
DKKCFADSLE QTNHEKDSES SNDDTSFPST PEGIKDRSGA YITCAPFNPA ATESIATNIF 480
PLLGDPTSEN KTDEKKIEEK KAQIVTEKNT STKTSNPFLV AAQDSETDYV TTDNLTKVTE 540
EVVANMPEGL TPDLVQEACE SELNEVTGTK IAYETKMDLV QTSEVMQESL YPAAQLCPSF 600
EESEATPSPV LPDIVMEAPL NSAVPSAGAS VIQPSSSPLE ASSVNYESIK HEPENPPPYE 660
EAMSVSLKKV SGIKEEIKEP ENINAALQET EAPYISIACD LIKETKLSAE PAPDFSDYSE 720
MAKVEQPVPD HSELVEDSSP DSEPVDLFSD DSIPDVPQKQ DETVMLVKES LTETSFESMI 780
EYENKEKLSA LPPEGGKPYL ESFKLSLDNT KDTLLPDEVS TLSKKEKIPL QMEELSTAVY 840
SNDDLFISKE AQIRETETFS DSSPIEIIDE FPTLISSKTD SFSKLAREYT DLEVSHKSEI 900
ANAPDGAGSL PCTELPHDLS LKNIQPKVEE KISFSDDFSK NGSATSKVLL LPPDVSALAT 960
QAEIESIVKP KVLVKEAEKK LPSDTEKEDR SPSAIFSAEL SKTSVVDLLY WRDIKKTGVV 1020
FGASLFLLLS LTVFSIVSVT AYIALALLSV TISFRIYKGV IQAIQKSDEG HPFRAYLESE 1080
VAISEELVQK YSNSALGHVN CTIKELRRLF LVDDLVDSLK FAVLMWVFTY VGALFNGLTL 1140
LILALISLFS VPVIYERHQA QIDHYLGLAN KNVKDAMAKI QAKIPGLKRK AE 1192 
Gene Ontology
 GO:0042995; C:cell projection; IEA:Compara.
 GO:0030176; C:integral to endoplasmic reticulum membrane; IDA:UniProtKB.
 GO:0043025; C:neuronal cell body; IEA:Compara.
 GO:0005635; C:nuclear envelope; IDA:UniProtKB.
 GO:0005886; C:plasma membrane; TAS:Reactome.
 GO:0001525; P:angiogenesis; IEA:Compara.
 GO:0006915; P:apoptotic process; NAS:UniProtKB.
 GO:0007413; P:axonal fasciculation; ISS:UniProtKB.
 GO:0060317; P:cardiac epithelial to mesenchymal transition; IEA:Compara.
 GO:0021801; P:cerebral cortex radial glia guided migration; ISS:UniProtKB.
 GO:0071786; P:endoplasmic reticulum tubular network organization; IMP:UniProtKB.
 GO:0030517; P:negative regulation of axon extension; IDA:UniProtKB.
 GO:0048011; P:neurotrophin TRK receptor signaling pathway; TAS:Reactome.
 GO:0042981; P:regulation of apoptotic process; NAS:UniProtKB.
 GO:2000172; P:regulation of branching morphogenesis of a nerve; ISS:UniProtKB.
 GO:0030334; P:regulation of cell migration; IDA:MGI. 
Interpro
 IPR003388; Reticulon. 
Pfam
 PF02453; Reticulon 
SMART
  
PROSITE
 PS50845; RETICULON 
PRINTS