UniProtKB - P77243 (PRPD_ECOLI)
Protein
2-methylcitrate dehydratase
Gene
prpD
Organism
Escherichia coli (strain K12)
Status
Functioni
Involved in the catabolism of short chain fatty acids (SCFA) via the tricarboxylic acid (TCA)(acetyl degradation route) and via the 2-methylcitrate cycle I (propionate degradation route). Catalyzes the dehydration of 2-methylcitrate (2-MC) to yield the cis isomer of 2-methyl-aconitate. It is also able to catalyze the dehydration of citrate and the hydration of cis-aconitate at a lower rate. Due to its broad substrate specificity, it seems to be responsible for the residual aconitase activity of the acnAB-null mutant.2 Publications
Miscellaneous
PrpD catalyzes an unusual syn elimination, whereas the addition of water by AcnB to cis-2-methylaconitate occurs in the usual anti manner.1 Publication
Caution
There is uncertainty concerning the 2-methylcitrate stereochemistry. Brock et al. report a (2S,3S) stereochemistry, but Reddick et al. determined that the 2-methylcitrate has either (2S,3R) or (2R,3S) stereochemistry.2 Publications
Catalytic activityi
Kineticsi
- KM=0.44 mM for (2S,3S)-2-methylcitrate1 Publication
: propanoate degradation Pathwayi
This protein is involved in the pathway propanoate degradation, which is part of Organic acid metabolism.1 PublicationView all proteins of this organism that are known to be involved in the pathway propanoate degradation and in Organic acid metabolism.
Pathwayi: tricarboxylic acid cycle
This protein is involved in step 2 of the subpathway that synthesizes isocitrate from oxaloacetate.1 PublicationProteins known to be involved in the 2 steps of the subpathway in this organism are:
- Citrate synthase (gltA), Citrate synthase (gltA), 2-methylcitrate synthase (prpC)
- Aconitate hydratase A (acnA), Aconitate hydratase B (acnB), Aconitate hydratase B (acnB), 2-methylcitrate dehydratase (prpD), Aconitate hydratase B (acnB)
View all proteins of this organism that are known to be involved in the subpathway that synthesizes isocitrate from oxaloacetate, the pathway tricarboxylic acid cycle and in Carbohydrate metabolism.
GO - Molecular functioni
- 2 iron, 2 sulfur cluster binding Source: UniProtKB
- 2-methylcitrate dehydratase activity Source: EcoCyc
- aconitate hydratase activity Source: UniProtKB-EC
GO - Biological processi
- propionate catabolic process, 2-methylcitrate cycle Source: InterPro
- propionate metabolic process, methylcitrate cycle Source: EcoliWiki
- tricarboxylic acid cycle Source: UniProtKB-UniPathway
Keywordsi
Molecular function | Lyase |
Biological process | Tricarboxylic acid cycle |
Enzyme and pathway databases
BioCyci | EcoCyc:G6199-MONOMER ECOL316407:JW0325-MONOMER MetaCyc:G6199-MONOMER |
BRENDAi | 4.2.1.79 2026 |
SABIO-RKi | P77243 |
UniPathwayi | UPA00223;UER00718 UPA00946 |
Names & Taxonomyi
Protein namesi | Recommended name: 2-methylcitrate dehydratase1 Publication (EC:4.2.1.792 Publications)Short name: 2-MC dehydratase1 Publication Alternative name(s): (2S,3S)-2-methylcitrate dehydratase1 Publication Aconitate hydratase1 Publication (EC:4.2.1.32 Publications) Short name: ACN1 Publication Short name: Aconitase1 Publication |
Gene namesi | Name:prpD1 Publication Synonyms:yahT Ordered Locus Names:b0334, JW0325 |
Organismi | Escherichia coli (strain K12) |
Taxonomic identifieri | 83333 [NCBI] |
Taxonomic lineagei | Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacterales › Enterobacteriaceae › Escherichia › |
Proteomesi |
|
Pathology & Biotechi
Disruption phenotypei
Cells lacking this gene abolished the residual aconitase activity of an AcnAB-null strain.1 Publication
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Initiator methioninei | Removed1 Publication | |||
ChainiPRO_0000215023 | 2 – 483 | 2-methylcitrate dehydrataseAdd BLAST | 482 |
Proteomic databases
EPDi | P77243 |
jPOSTi | P77243 |
PaxDbi | P77243 |
PRIDEi | P77243 |
Expressioni
Inductioni
By propionate, but not acetate or glucose. Expression of prpBCDE operon is regulated by PrpR, CRP and a variety of sugars such as arabinose, galactose, glucose mannose and xylose.3 Publications
Interactioni
Subunit structurei
Monomer.
2 PublicationsProtein-protein interaction databases
DIPi | DIP-10580N |
IntActi | P77243, 4 interactors |
STRINGi | 511145.b0334 |
Structurei
Secondary structure
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details3D structure databases
SMRi | P77243 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | P77243 |
Family & Domainsi
Sequence similaritiesi
Belongs to the PrpD family.Curated
Phylogenomic databases
eggNOGi | ENOG4105DXD Bacteria COG2079 LUCA |
HOGENOMi | HOG000159916 |
InParanoidi | P77243 |
KOi | K01720 |
PhylomeDBi | P77243 |
Family and domain databases
Gene3Di | 1.10.4100.10, 1 hit 3.30.1330.120, 1 hit |
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 |
PANTHERi | PTHR16943 PTHR16943, 1 hit |
Pfami | View protein in Pfam PF03972 MmgE_PrpD, 1 hit |
SUPFAMi | SSF103378 SSF103378, 1 hit |
TIGRFAMsi | TIGR02330 prpD, 1 hit |
i Sequence
Sequence statusi: Complete.
: The displayed sequence is further processed into a mature form. Sequence processingi
P77243-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MSAQINNIRP EFDREIVDIV DYVMNYEISS KVAYDTAHYC LLDTLGCGLE
60 70 80 90 100
ALEYPACKKL LGPIVPGTVV PNGVRVPGTQ FQLDPVQAAF NIGAMIRWLD
110 120 130 140 150
FNDTWLAAEW GHPSDNLGGI LATADWLSRN AVASGKAPLT MKQVLTAMIK
160 170 180 190 200
AHEIQGCIAL ENSFNRVGLD HVLLVKVAST AVVAEMLGLT REEILNAVSL
210 220 230 240 250
AWVDGQSLRT YRHAPNTGTR KSWAAGDATS RAVRLALMAK TGEMGYPSAL
260 270 280 290 300
TAPVWGFYDV SFKGESFRFQ RPYGSYVMEN VLFKISFPAE FHSQTAVEAA
310 320 330 340 350
MTLYEQMQAA GKTAADIEKV TIRTHEACIR IIDKKGPLNN PADRDHCIQY
360 370 380 390 400
MVAIPLLFGR LTAADYEDNV AQDKRIDALR EKINCFEDPA FTADYHDPEK
410 420 430 440 450
RAIANAITLE FTDGTRFEEV VVEYPIGHAR RRQDGIPKLV DKFKINLARQ
460 470 480
FPTRQQQRIL EVSLDRARLE QMPVNEYLDL YVI
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | U73857 Genomic DNA Translation: AAB18058.1 U00096 Genomic DNA Translation: AAC73437.1 AP009048 Genomic DNA Translation: BAE76116.1 |
PIRi | F64760 |
RefSeqi | NP_414868.1, NC_000913.3 WP_001275859.1, NZ_LN832404.1 |
Genome annotation databases
EnsemblBacteriai | AAC73437; AAC73437; b0334 BAE76116; BAE76116; BAE76116 |
GeneIDi | 945931 |
KEGGi | ecj:JW0325 eco:b0334 |
PATRICi | fig|1411691.4.peg.1943 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | U73857 Genomic DNA Translation: AAB18058.1 U00096 Genomic DNA Translation: AAC73437.1 AP009048 Genomic DNA Translation: BAE76116.1 |
PIRi | F64760 |
RefSeqi | NP_414868.1, NC_000913.3 WP_001275859.1, NZ_LN832404.1 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
1SZQ | X-ray | 2.70 | A/B | 1-483 | [»] | |
SMRi | P77243 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
DIPi | DIP-10580N |
IntActi | P77243, 4 interactors |
STRINGi | 511145.b0334 |
Proteomic databases
EPDi | P77243 |
jPOSTi | P77243 |
PaxDbi | P77243 |
PRIDEi | P77243 |
Genome annotation databases
EnsemblBacteriai | AAC73437; AAC73437; b0334 BAE76116; BAE76116; BAE76116 |
GeneIDi | 945931 |
KEGGi | ecj:JW0325 eco:b0334 |
PATRICi | fig|1411691.4.peg.1943 |
Organism-specific databases
EchoBASEi | EB3371 |
Phylogenomic databases
eggNOGi | ENOG4105DXD Bacteria COG2079 LUCA |
HOGENOMi | HOG000159916 |
InParanoidi | P77243 |
KOi | K01720 |
PhylomeDBi | P77243 |
Enzyme and pathway databases
UniPathwayi | UPA00223;UER00718 UPA00946 |
BioCyci | EcoCyc:G6199-MONOMER ECOL316407:JW0325-MONOMER MetaCyc:G6199-MONOMER |
BRENDAi | 4.2.1.79 2026 |
SABIO-RKi | P77243 |
Miscellaneous databases
EvolutionaryTracei | P77243 |
PROi | PR:P77243 |
Family and domain databases
Gene3Di | 1.10.4100.10, 1 hit 3.30.1330.120, 1 hit |
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 |
PANTHERi | PTHR16943 PTHR16943, 1 hit |
Pfami | View protein in Pfam PF03972 MmgE_PrpD, 1 hit |
SUPFAMi | SSF103378 SSF103378, 1 hit |
TIGRFAMsi | TIGR02330 prpD, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | PRPD_ECOLI | |
Accessioni | P77243Primary (citable) accession number: P77243 Secondary accession number(s): Q2MC90 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | November 1, 1997 |
Last sequence update: | January 23, 2007 | |
Last modified: | November 13, 2019 | |
This is version 155 of the entry and version 3 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Prokaryotic Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
3D-structure, Complete proteome, Direct protein sequencing, Reference proteomeDocuments
- SIMILARITY comments
Index of protein domains and families - Escherichia coli
Escherichia coli (strain K12): entries and cross-references to EcoGene - PATHWAY comments
Index of metabolic and biosynthesis pathways - PDB cross-references
Index of Protein Data Bank (PDB) cross-references