CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-005491
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 Pyruvate decarboxylase isozyme 3 
Protein Synonyms/Alias
  
Gene Name
 PDC6 
Gene Synonyms/Alias
 YGR087C 
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
463TMIRWGLKPYLFVLNubiquitination[1]
562LTAATNAKQ******ubiquitination[1]
Reference
 [1] 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
 Minor of three pyruvate decarboxylases (PDC1, PDC5, PDC6) implicated in the nonoxidative conversion of pyruvate to acetaldehyde and carbon dioxide during alcoholic fermentation. Most of the produced acetaldehyde is subsequently reduced to ethanol, but some is required for cytosolic acetyl-CoA production for biosynthetic pathways. The enzyme is also one of five 2-oxo acid decarboxylases (PDC1, PDC5, PDC6, ARO10, and THI3) able to decarboxylate more complex 2-oxo acids (alpha-keto-acids) than pyruvate, which seem mainly involved in amino acid catabolism. Here the enzyme catalyzes the decarboxylation of amino acids, which, in a first step, have been transaminated to the corresponding 2-oxo acids. In a third step, the resulting aldehydes are reduced to alcohols, collectively referred to as fusel oils or alcohols. Its preferred substrates are the transaminated amino acids valine, isoleucine, phenylalanine, and tryptophan, whereas leucine is no substrate. In a side-reaction the carbanionic intermediate (or active aldehyde) generated by decarboxylation or by activation of an aldehyde can react with an aldehyde via condensation (or carboligation) yielding a 2-hydroxy ketone, collectively called acyloins. The expression level of this protein in the presence of fermentable carbon sources is so low that it can not compensate for the other two pyruvate decarboxylases to sustain fermentation. 
Sequence Annotation
 REGION 390 476 Thiamine pyrophosphate binding (By
 METAL 444 444 Magnesium (By similarity).
 METAL 471 471 Magnesium (By similarity).
 METAL 473 473 Magnesium; via carbonyl oxygen (By
 BINDING 28 28 Substrate (By similarity).
 BINDING 115 115 Substrate (By similarity).
 BINDING 477 477 Substrate (By similarity).  
Keyword
 Branched-chain amino acid catabolism; Complete proteome; Cytoplasm; Decarboxylase; Lyase; Magnesium; Metal-binding; Phenylalanine catabolism; Reference proteome; Thiamine pyrophosphate; Tryptophan catabolism. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 563 AA 
Protein Sequence
MSEITLGKYL FERLKQVNVN TIFGLPGDFN LSLLDKIYEV DGLRWAGNAN ELNAAYAADG 60
YARIKGLSVL VTTFGVGELS ALNGIAGSYA EHVGVLHVVG VPSISAQAKQ LLLHHTLGNG 120
DFTVFHRMSA NISETTSMIT DIATAPSEID RLIRTTFITQ RPSYLGLPAN LVDLKVPGSL 180
LEKPIDLSLK PNDPEAEKEV IDTVLELIQN SKNPVILSDA CASRHNVKKE TQKLIDLTQF 240
PAFVTPLGKG SIDEQHPRYG GVYVGTLSKQ DVKQAVESAD LILSVGALLS DFNTGSFSYS 300
YKTKNVVEFH SDYVKVKNAT FLGVQMKFAL QNLLKVIPDV VKGYKSVPVP TKTPANKGVP 360
ASTPLKQEWL WNELSKFLQE GDVIISETGT SAFGINQTIF PKDAYGISQV LWGSIGFTTG 420
ATLGAAFAAE EIDPNKRVIL FIGDGSLQLT VQEISTMIRW GLKPYLFVLN NDGYTIEKLI 480
HGPHAEYNEI QTWDHLALLP AFGAKKYENH KIATTGEWDA LTTDSEFQKN SVIRLIELKL 540
PVFDAPESLI KQAQLTAATN AKQ 563 
Gene Ontology
 GO:0005737; C:cytoplasm; IDA:SGD.
 GO:0000287; F:magnesium ion binding; IEA:InterPro.
 GO:0004737; F:pyruvate decarboxylase activity; IDA:SGD.
 GO:0030976; F:thiamine pyrophosphate binding; IEA:InterPro.
 GO:0000949; P:aromatic amino acid family catabolic process to alcohol via Ehrlich pathway; IGI:SGD.
 GO:0009083; P:branched-chain amino acid catabolic process; IEA:UniProtKB-KW.
 GO:0006067; P:ethanol metabolic process; IMP:SGD.
 GO:0006559; P:L-phenylalanine catabolic process; IGI:SGD.
 GO:0006569; P:tryptophan catabolic process; IGI:SGD. 
Interpro
 IPR012000; Thiamin_PyroP_enz_cen_dom.
 IPR012001; Thiamin_PyroP_enz_TPP-bd_dom.
 IPR000399; TPP-bd_CS.
 IPR012110; TPP_enzyme.
 IPR011766; TPP_enzyme-bd_C. 
Pfam
 PF02775; TPP_enzyme_C
 PF00205; TPP_enzyme_M
 PF02776; TPP_enzyme_N 
SMART
  
PROSITE
 PS00187; TPP_ENZYMES 
PRINTS