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Entry version 153 (17 Jun 2020)
Sequence version 1 (01 Nov 1996)
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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

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

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

Miscellaneous

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

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>Catalytic activityi

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section describes the metabolic pathway(s) associated with a protein.<p><a href='/help/pathway' target='_top'>More...</a></p>Pathwayi: propanoate 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.

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionLyase

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...
BioCyci
YEAST:G3O-34164-MONOMER

UniPathway: a resource for the exploration and annotation of metabolic pathways

More...
UniPathwayi
UPA00946

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>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
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:PDH1
Ordered Locus Names:YPR002W
ORF Names:LPZ2W, YP9723.02
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri559292 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000002311 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">proteome</a> can consist of several components.<br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome XVI

Organism-specific databases

Eukaryotic Pathogen Database Resources

More...
EuPathDBi
FungiDB:YPR002W

Saccharomyces Genome Database

More...
SGDi
S000006206 PDH1

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00002150271 – 516Probable 2-methylcitrate dehydrataseAdd BLAST516

Proteomic databases

MaxQB - The MaxQuant DataBase

More...
MaxQBi
Q12428

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
Q12428

PRoteomics IDEntifications database

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PRIDEi
Q12428

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGRID)

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BioGRIDi
36178, 32 interactors

Protein interaction database and analysis system

More...
IntActi
Q12428, 2 interactors

Molecular INTeraction database

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MINTi
Q12428

STRING: functional protein association networks

More...
STRINGi
4932.YPR002W

Miscellaneous databases

RNAct, Protein-RNA interaction predictions for model organisms.

More...
RNActi
Q12428 protein

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

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SMRi
Q12428

Database of comparative protein structure models

More...
ModBasei
Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Belongs to the PrpD family.Curated

Phylogenomic databases

Ensembl GeneTree

More...
GeneTreei
ENSGT00390000015700

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

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HOGENOMi
CLU_021803_1_0_1

InParanoid: Eukaryotic Ortholog Groups

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InParanoidi
Q12428

KEGG Orthology (KO)

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KOi
K01720

Identification of Orthologs from Complete Genome Data

More...
OMAi
ECTKHLG

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.10.4100.10, 1 hit
3.30.1330.120, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR012705 2Me_IsoCit_deHydtase_PrpD
IPR036148 MmgE/PrpD_sf
IPR042183 MmgE/PrpD_sf_1
IPR042188 MmgE/PrpD_sf_2
IPR005656 MmgE_PrpD

The PANTHER Classification System

More...
PANTHERi
PTHR16943 PTHR16943, 1 hit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF03972 MmgE_PrpD, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF103378 SSF103378, 1 hit

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR02330 prpD, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence%5Flength">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>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
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:i2ED7F1AF648F2AAC
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

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EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
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

Protein sequence database of the Protein Information Resource

More...
PIRi
S52815

NCBI Reference Sequences

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RefSeqi
NP_015326.1, NM_001184099.1

Genome annotation databases

Ensembl fungal genome annotation project

More...
EnsemblFungii
YPR002W_mRNA; YPR002W; YPR002W

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
856108

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
sce:YPR002W

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>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

SMRiQ12428
ModBaseiSearch...

Protein-protein interaction databases

BioGRIDi36178, 32 interactors
IntActiQ12428, 2 interactors
MINTiQ12428
STRINGi4932.YPR002W

Proteomic databases

MaxQBiQ12428
PaxDbiQ12428
PRIDEiQ12428

Genome annotation databases

EnsemblFungiiYPR002W_mRNA; YPR002W; YPR002W
GeneIDi856108
KEGGisce:YPR002W

Organism-specific databases

EuPathDBiFungiDB:YPR002W
SGDiS000006206 PDH1

Phylogenomic databases

GeneTreeiENSGT00390000015700
HOGENOMiCLU_021803_1_0_1
InParanoidiQ12428
KOiK01720
OMAiECTKHLG

Enzyme and pathway databases

UniPathwayiUPA00946
BioCyciYEAST:G3O-34164-MONOMER

Miscellaneous databases

Protein Ontology

More...
PROi
PR:Q12428
RNActiQ12428 protein

Family and domain databases

Gene3Di1.10.4100.10, 1 hit
3.30.1330.120, 1 hit
InterProiView protein in InterPro
IPR012705 2Me_IsoCit_deHydtase_PrpD
IPR036148 MmgE/PrpD_sf
IPR042183 MmgE/PrpD_sf_1
IPR042188 MmgE/PrpD_sf_2
IPR005656 MmgE_PrpD
PANTHERiPTHR16943 PTHR16943, 1 hit
PfamiView protein in Pfam
PF03972 MmgE_PrpD, 1 hit
SUPFAMiSSF103378 SSF103378, 1 hit
TIGRFAMsiTIGR02330 prpD, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiPRPD_YEAST
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: Q12428
Secondary accession number(s): D6W413
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1996
Last modified: June 17, 2020
This is version 153 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

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
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