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Protein

Probable 2-methylcitrate dehydratase

Gene

PDH1

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the stereospecific dehydration of (2S,3S)-2-methylcitrate (2-MC) to yield the cis isomer of 2-methyl-aconitate.By similarity

Catalytic activityi

(2S,3S)-2-hydroxybutane-1,2,3-tricarboxylate = (Z)-but-2-ene-1,2,3-tricarboxylate + H2O.By similarity

Pathway:ipropanoate degradation

This protein is involved in the pathway propanoate degradation, which is part of Organic acid metabolism.By similarity
View all proteins of this organism that are known to be involved in the pathway propanoate degradation and in Organic acid metabolism.

GO - Molecular functioni

GO - Biological processi

  • propionate catabolic process, 2-methylcitrate cycle Source: InterPro
  • propionate metabolic process Source: SGD
Complete GO annotation...

Keywords - Molecular functioni

Lyase

Enzyme and pathway databases

BioCyciYEAST:G3O-34164-MONOMER.
UniPathwayiUPA00946.

Names & Taxonomyi

Protein namesi
Recommended name:
Probable 2-methylcitrate dehydrataseBy similarity (EC:4.2.1.79By similarity)
Short name:
2-MC dehydrataseBy similarity
Alternative name(s):
(2S,3S)-2-methylcitrate dehydrataseBy similarity
Gene namesi
Name:PDH1
Ordered Locus Names:YPR002W
ORF Names:LPZ2W, YP9723.02
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311 Componenti: Chromosome XVI

Organism-specific databases

CYGDiYPR002w.
EuPathDBiFungiDB:YPR002W.
SGDiS000006206. PDH1.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 516516Probable 2-methylcitrate dehydratasePRO_0000215027Add
BLAST

Proteomic databases

MaxQBiQ12428.
PaxDbiQ12428.
PeptideAtlasiQ12428.

Interactioni

Protein-protein interaction databases

BioGridi36178. 14 interactions.
IntActiQ12428. 1 interaction.
MINTiMINT-2784533.

Structurei

3D structure databases

ProteinModelPortaliQ12428.
SMRiQ12428. Positions 38-513.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the PrpD family.Curated

Phylogenomic databases

eggNOGiCOG2079.
HOGENOMiHOG000159916.
InParanoidiQ12428.
KOiK01720.
OMAiPECTKHL.
OrthoDBiEOG773XR2.

Family and domain databases

InterProiIPR012705. 2Me_IsoCit_deHydtase_PrpD.
IPR005656. MmgE_PrpD.
[Graphical view]
PANTHERiPTHR16943. PTHR16943. 1 hit.
PfamiPF03972. MmgE_PrpD. 1 hit.
[Graphical view]
SUPFAMiSSF103378. SSF103378. 1 hit.
TIGRFAMsiTIGR02330. prpD. 1 hit.

Sequencei

Sequence statusi: Complete.

Q12428-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MFLAKNLKNN KIKVCLPKKK FAALSTASIQ TNERPNPDKV LKDIAKYVHE
60 70 80 90 100
TPLKSSLALD TARLCFLDTL GCGLAALKFK QAQNIIKPIV PGTIVPSGTK
110 120 130 140 150
ILGTSYVMDP VKGAFAIGTL IRWLDYNDCW LAAEWGHPSD NLGGILAVAD
160 170 180 190 200
HLSRLNKATH GKNGKQFLVK DVLEAMIKAH EIQGIIALEN SFNKVGLDHV
210 220 230 240 250
VLVKVATAGV VSKMLGLSQE QTIEALSQAF VDGQSLRTYR HAPNTGSRKS
260 270 280 290 300
WAAGDAVSRA VNLAYLVKNA NVGTIPSVLT ARTWGFYDVL FKGKPFSFQQ
310 320 330 340 350
RSKYDSYVME NVLFKISFPA EFHAQTAVEA AVKAYRILAK QGKTFKDIKS
360 370 380 390 400
IRIRTQEAAM RIIDKSGPLY NYADRDHCIQ YMIAVPLITG NLTATDYSDE
410 420 430 440 450
VARNPEIDNL RSKMYCIEDT HLTQNYHDPD KRSIGNALLI ELNDGTQLDE
460 470 480 490 500
IFVEYPVGHK FRREEGIPLL MNKFQRHLRE HFVESPDKVD LIMKVSSKTN
510
FLNMQIDKYM DLFTEG
Length:516
Mass (Da):57,684
Last modified:November 1, 1996 - v1
Checksum:i2ED7F1AF648F2AAC
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z71255 Genomic DNA. Translation: CAA95042.1.
Z48951 Genomic DNA. Translation: CAA88780.1.
U31900 Genomic DNA. Translation: AAA97581.1.
BK006949 Genomic DNA. Translation: DAA11429.1.
PIRiS52815.
RefSeqiNP_015326.1. NM_001184099.1.

Genome annotation databases

EnsemblFungiiYPR002W; YPR002W; YPR002W.
GeneIDi856108.
KEGGisce:YPR002W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z71255 Genomic DNA. Translation: CAA95042.1.
Z48951 Genomic DNA. Translation: CAA88780.1.
U31900 Genomic DNA. Translation: AAA97581.1.
BK006949 Genomic DNA. Translation: DAA11429.1.
PIRiS52815.
RefSeqiNP_015326.1. NM_001184099.1.

3D structure databases

ProteinModelPortaliQ12428.
SMRiQ12428. Positions 38-513.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi36178. 14 interactions.
IntActiQ12428. 1 interaction.
MINTiMINT-2784533.

Proteomic databases

MaxQBiQ12428.
PaxDbiQ12428.
PeptideAtlasiQ12428.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYPR002W; YPR002W; YPR002W.
GeneIDi856108.
KEGGisce:YPR002W.

Organism-specific databases

CYGDiYPR002w.
EuPathDBiFungiDB:YPR002W.
SGDiS000006206. PDH1.

Phylogenomic databases

eggNOGiCOG2079.
HOGENOMiHOG000159916.
InParanoidiQ12428.
KOiK01720.
OMAiPECTKHL.
OrthoDBiEOG773XR2.

Enzyme and pathway databases

UniPathwayiUPA00946.
BioCyciYEAST:G3O-34164-MONOMER.

Miscellaneous databases

NextBioi981170.
PROiQ12428.

Family and domain databases

InterProiIPR012705. 2Me_IsoCit_deHydtase_PrpD.
IPR005656. MmgE_PrpD.
[Graphical view]
PANTHERiPTHR16943. PTHR16943. 1 hit.
PfamiPF03972. MmgE_PrpD. 1 hit.
[Graphical view]
SUPFAMiSSF103378. SSF103378. 1 hit.
TIGRFAMsiTIGR02330. prpD. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The nucleotide sequence of Saccharomyces cerevisiae chromosome XVI."
    Bussey H., Storms R.K., Ahmed A., Albermann K., Allen E., Ansorge W., Araujo R., Aparicio A., Barrell B.G., Badcock K., Benes V., Botstein D., Bowman S., Brueckner M., Carpenter J., Cherry J.M., Chung E., Churcher C.M.
    , Coster F., Davis K., Davis R.W., Dietrich F.S., Delius H., DiPaolo T., Dubois E., Duesterhoeft A., Duncan M., Floeth M., Fortin N., Friesen J.D., Fritz C., Goffeau A., Hall J., Hebling U., Heumann K., Hilbert H., Hillier L.W., Hunicke-Smith S., Hyman R.W., Johnston M., Kalman S., Kleine K., Komp C., Kurdi O., Lashkari D., Lew H., Lin A., Lin D., Louis E.J., Marathe R., Messenguy F., Mewes H.-W., Mirtipati S., Moestl D., Mueller-Auer S., Namath A., Nentwich U., Oefner P., Pearson D., Petel F.X., Pohl T.M., Purnelle B., Rajandream M.A., Rechmann S., Rieger M., Riles L., Roberts D., Schaefer M., Scharfe M., Scherens B., Schramm S., Schroeder M., Sdicu A.-M., Tettelin H., Urrestarazu L.A., Ushinsky S., Vierendeels F., Vissers S., Voss H., Walsh S.V., Wambutt R., Wang Y., Wedler E., Wedler H., Winnett E., Zhong W.-W., Zollner A., Vo D.H., Hani J.
    Nature 387:103-105(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  2. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  3. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiPRPD_YEAST
AccessioniPrimary (citable) accession number: Q12428
Secondary accession number(s): D6W413
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1996
Last modified: July 22, 2015
This is version 117 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 2730 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families
  3. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  4. Yeast chromosome XVI
    Yeast (Saccharomyces cerevisiae) chromosome XVI: entries and gene names

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.