CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-007425
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 Malate dehydrogenase, cytoplasmic 
Protein Synonyms/Alias
 Cytosolic malate dehydrogenase; Diiodophenylpyruvate reductase 
Gene Name
 MDH1 
Gene Synonyms/Alias
 MDHA 
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
103MERKDLLKANVKIFKacetylation[1]
118SQGAALDKYAKKSVKacetylation[1]
118SQGAALDKYAKKSVKubiquitination[2, 3]
121AALDKYAKKSVKVIVubiquitination[3]
122ALDKYAKKSVKVIVVubiquitination[3]
125KYAKKSVKVIVVGNPubiquitination[2, 4]
149KSAPSIPKENFSCLTubiquitination[3, 4]
164RLDHNRAKAQIALKLubiquitination[3]
179GVTANDVKNVIIWGNubiquitination[3, 5]
201DVNHAKVKLQGKEVGubiquitination[3]
205AKVKLQGKEVGVYEAubiquitination[2, 4]
214VGVYEALKDDSWLKGubiquitination[2, 3, 4, 5]
298VIKNKTWKFVEGLPIacetylation[1]
298VIKNKTWKFVEGLPIubiquitination[2, 3, 4]
312INDFSREKMDLTAKEubiquitination[3]
318EKMDLTAKELTEEKEubiquitination[2, 4]
324AKELTEEKESAFEFLubiquitination[3]
Reference
 [1] 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]
 [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] 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] 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]
 [5] 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] 
Functional Description
  
Sequence Annotation
 NP_BIND 11 17 NAD (By similarity).
 NP_BIND 129 131 NAD (By similarity).
 ACT_SITE 187 187 Proton acceptor (By similarity).
 BINDING 92 92 Substrate (By similarity).
 BINDING 98 98 Substrate (By similarity).
 BINDING 105 105 NAD (By similarity).
 BINDING 112 112 NAD (By similarity).
 BINDING 131 131 Substrate (By similarity).
 BINDING 162 162 Substrate.
 MOD_RES 2 2 N-acetylserine.
 MOD_RES 118 118 N6-acetyllysine.
 MOD_RES 121 121 N6-acetyllysine.
 MOD_RES 210 210 Phosphotyrosine (By similarity).
 MOD_RES 241 241 Phosphoserine (By similarity).
 MOD_RES 298 298 N6-acetyllysine.
 MOD_RES 333 333 Phosphoserine.  
Keyword
 Acetylation; Alternative splicing; Complete proteome; Cytoplasm; Direct protein sequencing; NAD; Oxidoreductase; Phosphoprotein; Reference proteome; Tricarboxylic acid cycle; Ubl conjugation. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 334 AA 
Protein Sequence
MSEPIRVLVT GAAGQIAYSL LYSIGNGSVF GKDQPIILVL LDITPMMGVL DGVLMELQDC 60
ALPLLKDVIA TDKEDVAFKD LDVAILVGSM PRREGMERKD LLKANVKIFK SQGAALDKYA 120
KKSVKVIVVG NPANTNCLTA SKSAPSIPKE NFSCLTRLDH NRAKAQIALK LGVTANDVKN 180
VIIWGNHSST QYPDVNHAKV KLQGKEVGVY EALKDDSWLK GEFVTTVQQR GAAVIKARKL 240
SSAMSAAKAI CDHVRDIWFG TPEGEFVSMG VISDGNSYGV PDDLLYSFPV VIKNKTWKFV 300
EGLPINDFSR EKMDLTAKEL TEEKESAFEF LSSA 334 
Gene Ontology
 GO:0005813; C:centrosome; IDA:HPA.
 GO:0005829; C:cytosol; TAS:Reactome.
 GO:0047860; F:diiodophenylpyruvate reductase activity; IEA:EC.
 GO:0030060; F:L-malate dehydrogenase activity; TAS:Reactome.
 GO:0004470; F:malic enzyme activity; TAS:ProtInc.
 GO:0044262; P:cellular carbohydrate metabolic process; IEA:InterPro.
 GO:0006094; P:gluconeogenesis; TAS:Reactome.
 GO:0006108; P:malate metabolic process; IEA:InterPro.
 GO:0044281; P:small molecule metabolic process; TAS:Reactome.
 GO:0006099; P:tricarboxylic acid cycle; IEA:UniProtKB-KW. 
Interpro
 IPR001557; L-lactate/malate_DH.
 IPR022383; Lactate/malate_DH_C.
 IPR001236; Lactate/malate_DH_N.
 IPR015955; Lactate_DH/Glyco_Ohase_4_C.
 IPR001252; Malate_DH_AS.
 IPR011274; Malate_DH_NAD-dep_euk.
 IPR010945; Malate_DH_type2.
 IPR016040; NAD(P)-bd_dom. 
Pfam
 PF02866; Ldh_1_C
 PF00056; Ldh_1_N 
SMART
  
PROSITE
 PS00068; MDH 
PRINTS