CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-001128
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 Nephrocystin-4 
Protein Synonyms/Alias
 Nephroretinin 
Gene Name
 NPHP4 
Gene Synonyms/Alias
 KIAA0673 
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
150PISASQDKRLRLYHGubiquitination[1, 2, 3, 4]
235LRKPRLQKPITGHLDubiquitination[3]
329RKVVSSSKTSSGSQAubiquitination[1, 3]
424PSHCLVYKVPSASMSubiquitination[3]
436SMSSEEVKQVESGTLubiquitination[1, 3]
731MVGPGFLKPGERRCFubiquitination[3]
809MLGFGRVKPIGVHSVubiquitination[3]
818IGVHSVVKGRLHLTLubiquitination[3]
835VGHPCEQKVRGCSTLubiquitination[3]
899LTHARQGKGPQDVSRubiquitination[3]
1027SQEWRDFKGAAGLHTubiquitination[3]
1086SPGLSNEKGMDAVSPubiquitination[3]
1095MDAVSPWKSSAVPTKubiquitination[3, 5]
1145HPELSFLKKAIRLPPubiquitination[4]
1146PELSFLKKAIRLPPWubiquitination[3]
1272TSHPQELKTDPKGVFubiquitination[3, 5]
1332CRQPLISKAFEIMLAubiquitination[3]
1344MLAAGEGKGVNKRITubiquitination[3]
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] Methods for quantification of in vivo changes in protein ubiquitination following proteasome and deubiquitinase inhibition.
 Udeshi ND, Mani DR, Eisenhaure T, Mertins P, Jaffe JD, Clauser KR, Hacohen N, Carr SA.
 Mol Cell Proteomics. 2012 May;11(5):148-59. [PMID: 22505724]
 [3] 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]
 [4] Landscape of the PARKIN-dependent ubiquitylome in response to mitochondrial depolarization.
 Sarraf SA, Raman M, Guarani-Pereira V, Sowa ME, Huttlin EL, Gygi SP, Harper JW.
 Nature. 2013 Apr 18;496(7445):372-6. [PMID: 23503661]
 [5] Integrated proteomic analysis of post-translational modifications by serial enrichment.
 Mertins P, Qiao JW, Patel J, Udeshi ND, Clauser KR, Mani DR, Burgess MW, Gillette MA, Jaffe JD, Carr SA.
 Nat Methods. 2013 Jul;10(7):634-7. [PMID: 23749302] 
Functional Description
 Involved in the organization of apical junctions in kidney cells together with NPHP1 and RPGRIP1L/NPHP8 (By similarity). Does not seem to be strictly required for ciliogenesis (By similarity). 
Sequence Annotation
  
Keyword
 Cell junction; Cell projection; Ciliopathy; Cilium; Complete proteome; Cytoplasm; Cytoskeleton; Disease mutation; Nephronophthisis; Polymorphism; Reference proteome; Senior-Loken syndrome; Tight junction. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 1426 AA 
Protein Sequence
MNDWHRIFTQ NVLVPPHPQR ARQPWKESTA FQCVLKWLDG PVIRQGVLEV LSEVECHLRV 60
SFFDVTYRHF FGRTWKTTVK PTKRPPSRIV FNEPLYFHTS LNHPHIVAVV EVVAEGKKRD 120
GSLQTLSCGF GILRIFSNQP DSPISASQDK RLRLYHGTPR ALLHPLLQDP AEQNRHMTLI 180
ENCSLQYTLK PHPALEPAFH LLPENLLVSG LQQIPGLLPA HGESGDALRK PRLQKPITGH 240
LDDLFFTLYP SLEKFEEELL ELHVQDHFQE GCGPLDGGAL EILERRLRVG VHNGLGFVQR 300
PQVVVLVPEM DVALTRSASF SRKVVSSSKT SSGSQALVLR SRLRLPEMVG HPAFAVIFQL 360
EYVFSSPAGV DGNAASVTSL SNLACMHMVR WAVWNPLLEA DSGRVTLPLQ GGIQPNPSHC 420
LVYKVPSASM SSEEVKQVES GTLRFQFSLG SEEHLDAPTE PVSGPKVERR PSRKPPTSPS 480
SPPAPVPRVL AAPQNSPVGP GLSISQLAAS PRSPTQHCLA RPTSQLPHGS QASPAQAQEF 540
PLEAGISHLE ADLSQTSLVL ETSIAEQLQE LPFTPLHAPI VVGTQTRSSA GQPSRASMVL 600
LQSSGFPEIL DANKQPAEAV SATEPVTFNP QKEESDCLQS NEMVLQFLAF SRVAQDCRGT 660
SWPKTVYFTF QFYRFPPATT PRLQLVQLDE AGQPSSGALT HILVPVSRDG TFDAGSPGFQ 720
LRYMVGPGFL KPGERRCFAR YLAVQTLQID VWDGDSLLLI GSAAVQMKHL LRQGRPAVQA 780
SHELEVVATE YEQDNMVVSG DMLGFGRVKP IGVHSVVKGR LHLTLANVGH PCEQKVRGCS 840
TLPPSRSRVI SNDGASRFSG GSLLTTGSSR RKHVVQAQKL ADVDSELAAM LLTHARQGKG 900
PQDVSRESDA TRRRKLERMR SVRLQEAGGD LGRRGTSVLA QQSVRTQHLR DLQVIAAYRE 960
RTKAESIASL LSLAITTEHT LHATLGVAEF FEFVLKNPHN TQHTVTVEID NPELSVIVDS 1020
QEWRDFKGAA GLHTPVEEDM FHLRGSLAPQ LYLRPHETAH VPFKFQSFSA GQLAMVQASP 1080
GLSNEKGMDA VSPWKSSAVP TKHAKVLFRA SGGKPIAVLC LTVELQPHVV DQVFRFYHPE 1140
LSFLKKAIRL PPWHTFPGAP VGMLGEDPPV HVRCSDPNVI CETQNVGPGE PRDIFLKVAS 1200
GPSPEIKDFF VIIYSDRWLA TPTQTWQVYL HSLQRVDVSC VAGQLTRLSL VLRGTQTVRK 1260
VRAFTSHPQE LKTDPKGVFV LPPRGVQDLH VGVRPLRAGS RFVHLNLVDV DCHQLVASWL 1320
VCLCCRQPLI SKAFEIMLAA GEGKGVNKRI TYTNPYPSRR TFHLHSDHPE LLRFREDSFQ 1380
VGGGETYTIG LQFAPSQRVG EEEILIYIND HEDKNEEAFC VKVIYQ 1426 
Gene Ontology
 GO:0005911; C:cell-cell junction; IDA:UniProtKB.
 GO:0005813; C:centrosome; IDA:UniProtKB.
 GO:0005929; C:cilium; IEA:UniProtKB-KW.
 GO:0005829; C:cytosol; TAS:Reactome.
 GO:0016020; C:membrane; IC:UniProtKB.
 GO:0005932; C:microtubule basal body; IEA:UniProtKB-SubCell.
 GO:0005923; C:tight junction; IEA:UniProtKB-SubCell.
 GO:0005198; F:structural molecule activity; NAS:UniProtKB.
 GO:0030036; P:actin cytoskeleton organization; NAS:UniProtKB.
 GO:0016337; P:cell-cell adhesion; NAS:UniProtKB.
 GO:0035329; P:hippo signaling cascade; TAS:Reactome.
 GO:0060041; P:retina development in camera-type eye; IEA:Compara.
 GO:0007632; P:visual behavior; NAS:UniProtKB. 
Interpro
  
Pfam
  
SMART
  
PROSITE
  
PRINTS