CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-002466
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 NADP-specific glutamate dehydrogenase 1 
Protein Synonyms/Alias
 NADP-GDH 1; NADP-dependent glutamate dehydrogenase 1 
Gene Name
 GDH1 
Gene Synonyms/Alias
 URE1; YOR375C 
Created Date
 July 27, 2013 
Organism
 Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) 
NCBI Taxa ID
 559292 
Lysine Modification
Position
Peptide
Type
References
53RVTWENDKGEQEVAQacetylation[1]
53RVTWENDKGEQEVAQubiquitination[2]
70RVQYNSAKGPYKGGLubiquitination[2]
74NSAKGPYKGGLRFHPubiquitination[2]
89SVNLSILKFLGFEQIubiquitination[2]
118GGLCVDLKGRSNNEIacetylation[1]
325EVSGEEAKALVAQGVubiquitination[2, 3, 4, 5, 6]
371AVWYGPPKAANLGGVubiquitination[2, 3, 4, 5, 6]
404ERVDQELKRIMINCFubiquitination[2]
433KVLPSLVKGANIASFubiquitination[2, 6]
Reference
 [1] Proteome-wide analysis of lysine acetylation suggests its broad regulatory scope in Saccharomyces cerevisiae.
 Henriksen P, Wagner SA, Weinert BT, Sharma S, Bacinskaja G, Rehman M, Juffer AH, Walther TC, Lisby M, Choudhary C.
 Mol Cell Proteomics. 2012 Nov;11(11):1510-22. [PMID: 22865919]
 [2] Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.
 Swaney DL, Beltrao P, Starita L, Guo A, Rush J, Fields S, Krogan NJ, Villén J.
 Nat Methods. 2013 Jul;10(7):676-82. [PMID: 23749301]
 [3] A proteomics approach to understanding protein ubiquitination.
 Peng J, Schwartz D, Elias JE, Thoreen CC, Cheng D, Marsischky G, Roelofs J, Finley D, Gygi SP.
 Nat Biotechnol. 2003 Aug;21(8):921-6. [PMID: 12872131]
 [4] Computational identification of ubiquitylation sites from protein sequences.
 Tung CW, Ho SY.
 BMC Bioinformatics. 2008 Jul 15;9:310. [PMID: 18625080]
 [5] Identification, analysis, and prediction of protein ubiquitination sites.
 Radivojac P, Vacic V, Haynes C, Cocklin RR, Mohan A, Heyen JW, Goebl MG, Iakoucheva LM.
 Proteins. 2010 Feb 1;78(2):365-80. [PMID: 19722269]
 [6] Sites of ubiquitin attachment in Saccharomyces cerevisiae.
 Starita LM, Lo RS, Eng JK, von Haller PD, Fields S.
 Proteomics. 2012 Jan;12(2):236-40. [PMID: 22106047] 
Functional Description
  
Sequence Annotation
 NP_BIND 174 203 NAD (By similarity).
 ACT_SITE 110 110 By similarity.
 CROSSLNK 325 325 Glycyl lysine isopeptide (Lys-Gly)
 CROSSLNK 371 371 Glycyl lysine isopeptide (Lys-Gly)  
Keyword
 Complete proteome; Direct protein sequencing; Isopeptide bond; NADP; Oxidoreductase; Reference proteome; Ubl conjugation. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 454 AA 
Protein Sequence
MSEPEFQQAY EEVVSSLEDS TLFEQHPEYR KVLPIVSVPE RIIQFRVTWE NDKGEQEVAQ 60
GYRVQYNSAK GPYKGGLRFH PSVNLSILKF LGFEQIFKNS LTGLDMGGGK GGLCVDLKGR 120
SNNEIRRICY AFMRELSRHI GQDTDVPAGD IGVGGREIGY LFGAYRSYKN SWEGVLTGKG 180
LNWGGSLIRP EATGYGLVYY TQAMIDYATN GKESFEGKRV TISGSGNVAQ YAALKVIELG 240
GTVVSLSDSK GCIISETGIT SEQVADISSA KVNFKSLEQI VNEYSTFSEN KVQYIAGARP 300
WTHVQKVDIA LPCATQNEVS GEEAKALVAQ GVKFIAEGSN MGSTPEAIAV FETARSTATG 360
PSEAVWYGPP KAANLGGVAV SGLEMAQNSQ RITWTSERVD QELKRIMINC FNECIDYAKK 420
YTKDGKVLPS LVKGANIASF IKVSDAMFDQ GDVF 454 
Gene Ontology
 GO:0005737; C:cytoplasm; IDA:SGD.
 GO:0005634; C:nucleus; IDA:SGD.
 GO:0004354; F:glutamate dehydrogenase (NADP+) activity; IDA:SGD.
 GO:0019676; P:ammonia assimilation cycle; IEP:SGD.
 GO:0006537; P:glutamate biosynthetic process; IGI:SGD. 
Interpro
 IPR006095; Glu/Leu/Phe/Val_DH.
 IPR006096; Glu/Leu/Phe/Val_DH_C.
 IPR006097; Glu/Leu/Phe/Val_DH_dimer_dom.
 IPR014362; Glu_DH.
 IPR016040; NAD(P)-bd_dom. 
Pfam
 PF00208; ELFV_dehydrog
 PF02812; ELFV_dehydrog_N 
SMART
 SM00839; ELFV_dehydrog 
PROSITE
 PS00074; GLFV_DEHYDROGENASE 
PRINTS
 PR00082; GLFDHDRGNASE.