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Protein

Methylthioribulose-1-phosphate dehydratase

Gene

MDE1

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the dehydration of methylthioribulose-1-phosphate (MTRu-1-P) into 2,3-diketo-5-methylthiopentyl-1-phosphate (DK-MTP-1-P).UniRule annotation1 Publication

Catalytic activityi

S-methyl-5-thio-D-ribulose 1-phosphate = 5-(methylthio)-2,3-dioxopentyl phosphate + H2O.UniRule annotation

Cofactori

Zn2+UniRule annotationNote: Binds 1 zinc ion per subunit.UniRule annotation

Pathwayi: L-methionine biosynthesis via salvage pathway

This protein is involved in step 2 of the subpathway that synthesizes L-methionine from S-methyl-5-thio-alpha-D-ribose 1-phosphate.UniRule annotation
Proteins known to be involved in the 6 steps of the subpathway in this organism are:
  1. Methylthioribose-1-phosphate isomerase (MRI1)
  2. Methylthioribulose-1-phosphate dehydratase (MDE1)
  3. Enolase-phosphatase E1 (UTR4)
  4. Enolase-phosphatase E1 (UTR4)
  5. 1,2-dihydroxy-3-keto-5-methylthiopentene dioxygenase (ADI1)
  6. Aromatic amino acid aminotransferase 2 (ARO9), Branched-chain-amino-acid aminotransferase, cytosolic (BAT2), Branched-chain-amino-acid aminotransferase, mitochondrial (BAT1), Aromatic/aminoadipate aminotransferase 1 (ARO8)
This subpathway is part of the pathway L-methionine biosynthesis via salvage pathway, which is itself part of Amino-acid biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes L-methionine from S-methyl-5-thio-alpha-D-ribose 1-phosphate, the pathway L-methionine biosynthesis via salvage pathway and in Amino-acid biosynthesis.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi107 – 1071ZincUniRule annotation
Metal bindingi109 – 1091ZincUniRule annotation

GO - Molecular functioni

  • methylthioribulose 1-phosphate dehydratase activity Source: SGD
  • zinc ion binding Source: UniProtKB-HAMAP

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Lyase

Keywords - Biological processi

Amino-acid biosynthesis, Methionine biosynthesis

Keywords - Ligandi

Metal-binding, Zinc

Enzyme and pathway databases

BioCyciYEAST:G3O-31663-MONOMER.
BRENDAi4.2.1.109. 984.
UniPathwayiUPA00904; UER00875.

Names & Taxonomyi

Protein namesi
Recommended name:
Methylthioribulose-1-phosphate dehydrataseUniRule annotation (EC:4.2.1.109UniRule annotation)
Short name:
MTRu-1-P dehydrataseUniRule annotation
Gene namesi
Name:MDE1UniRule annotation
Ordered Locus Names:YJR024C
ORF Names:J1545, YJR83.18
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome X

Organism-specific databases

EuPathDBiFungiDB:YJR024C.
SGDiS000003785. MDE1.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 244244Methylthioribulose-1-phosphate dehydratasePRO_0000162938Add
BLAST

Proteomic databases

MaxQBiP47095.
PeptideAtlasiP47095.

PTM databases

iPTMnetiP47095.

Interactioni

Protein-protein interaction databases

BioGridi33777. 12 interactions.
DIPiDIP-1910N.
MINTiMINT-399919.

Structurei

3D structure databases

ProteinModelPortaliP47095.
SMRiP47095. Positions 12-228.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the aldolase class II family. MtnB subfamily.UniRule annotation

Phylogenomic databases

GeneTreeiENSGT00390000001680.
HOGENOMiHOG000192424.
InParanoidiP47095.
KOiK08964.
OMAiQCTPLFL.
OrthoDBiEOG7MH18Q.

Family and domain databases

Gene3Di3.40.225.10. 1 hit.
HAMAPiMF_03116. Salvage_MtnB_euk.
InterProiIPR001303. Aldolase_II/adducin_N.
IPR017714. MethylthioRu-1-P_deHdtase_MtnB.
IPR027514. Salvage_MtnB_euk.
[Graphical view]
PANTHERiPTHR10640. PTHR10640. 1 hit.
PfamiPF00596. Aldolase_II. 1 hit.
[Graphical view]
SMARTiSM01007. Aldolase_II. 1 hit.
[Graphical view]
SUPFAMiSSF53639. SSF53639. 1 hit.
TIGRFAMsiTIGR03328. salvage_mtnB. 1 hit.

Sequencei

Sequence statusi: Complete.

P47095-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSSQDVLIHS DDPCHPANLI CTLCKQFFHN NWCTGTGGGI SIKDPNTNYY
60 70 80 90 100
YLAPSGVQKE KMIPEDLFVM DAQTLEYLRS PKLYKPSACT PLFLACYQKK
110 120 130 140 150
NAGAIIHTHS QNAVICSLLF GDEFRIANIE QIKAIPSGKV DPVTKKPMAL
160 170 180 190 200
SFFDTLKIPI IENMAHEDEL IDDLHKTFKD YPDTCAVIVR RHGIFVWGPT
210 220 230 240
IDKAKIFNEA IDYLMELAIK MYQMGIPPDC GIGEEKKHLK MASP
Length:244
Mass (Da):27,427
Last modified:February 1, 1996 - v1
Checksum:iC41FAD142D677A00
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z49524 Genomic DNA. Translation: CAA89549.1.
X87297 Genomic DNA. Translation: CAA60719.1.
X87611 Genomic DNA. Translation: CAA60947.1.
AY692565 Genomic DNA. Translation: AAT92584.1.
BK006943 Genomic DNA. Translation: DAA08813.1.
PIRiS57042.
RefSeqiNP_012558.3. NM_001181682.3.

Genome annotation databases

EnsemblFungiiYJR024C; YJR024C; YJR024C.
GeneIDi853481.
KEGGisce:YJR024C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z49524 Genomic DNA. Translation: CAA89549.1.
X87297 Genomic DNA. Translation: CAA60719.1.
X87611 Genomic DNA. Translation: CAA60947.1.
AY692565 Genomic DNA. Translation: AAT92584.1.
BK006943 Genomic DNA. Translation: DAA08813.1.
PIRiS57042.
RefSeqiNP_012558.3. NM_001181682.3.

3D structure databases

ProteinModelPortaliP47095.
SMRiP47095. Positions 12-228.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi33777. 12 interactions.
DIPiDIP-1910N.
MINTiMINT-399919.

PTM databases

iPTMnetiP47095.

Proteomic databases

MaxQBiP47095.
PeptideAtlasiP47095.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYJR024C; YJR024C; YJR024C.
GeneIDi853481.
KEGGisce:YJR024C.

Organism-specific databases

EuPathDBiFungiDB:YJR024C.
SGDiS000003785. MDE1.

Phylogenomic databases

GeneTreeiENSGT00390000001680.
HOGENOMiHOG000192424.
InParanoidiP47095.
KOiK08964.
OMAiQCTPLFL.
OrthoDBiEOG7MH18Q.

Enzyme and pathway databases

UniPathwayiUPA00904; UER00875.
BioCyciYEAST:G3O-31663-MONOMER.
BRENDAi4.2.1.109. 984.

Miscellaneous databases

NextBioi974092.
PROiP47095.

Family and domain databases

Gene3Di3.40.225.10. 1 hit.
HAMAPiMF_03116. Salvage_MtnB_euk.
InterProiIPR001303. Aldolase_II/adducin_N.
IPR017714. MethylthioRu-1-P_deHdtase_MtnB.
IPR027514. Salvage_MtnB_euk.
[Graphical view]
PANTHERiPTHR10640. PTHR10640. 1 hit.
PfamiPF00596. Aldolase_II. 1 hit.
[Graphical view]
SMARTiSM01007. Aldolase_II. 1 hit.
[Graphical view]
SUPFAMiSSF53639. SSF53639. 1 hit.
TIGRFAMsiTIGR03328. salvage_mtnB. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The sequence of 24.3 kb from chromosome X reveals five complete open reading frames, all of which correspond to new genes, and a tandem insertion of a Ty1 transposon."
    Zagulski M., Babinska B., Gromadka R., Migdalski A., Rytka J., Sulicka J., Herbert C.J.
    Yeast 11:1179-1186(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  2. "Complete nucleotide sequence of Saccharomyces cerevisiae chromosome X."
    Galibert F., Alexandraki D., Baur A., Boles E., Chalwatzis N., Chuat J.-C., Coster F., Cziepluch C., de Haan M., Domdey H., Durand P., Entian K.-D., Gatius M., Goffeau A., Grivell L.A., Hennemann A., Herbert C.J., Heumann K.
    , Hilger F., Hollenberg C.P., Huang M.-E., Jacq C., Jauniaux J.-C., Katsoulou C., Kirchrath L., Kleine K., Kordes E., Koetter P., Liebl S., Louis E.J., Manus V., Mewes H.-W., Miosga T., Obermaier B., Perea J., Pohl T.M., Portetelle D., Pujol A., Purnelle B., Ramezani Rad M., Rasmussen S.W., Rose M., Rossau R., Schaaff-Gerstenschlaeger I., Smits P.H.M., Scarcez T., Soriano N., To Van D., Tzermia M., Van Broekhoven A., Vandenbol M., Wedler H., von Wettstein D., Wambutt R., Zagulski M., Zollner A., Karpfinger-Hartl L.
    EMBO J. 15:2031-2049(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  3. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  4. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  5. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
  6. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
  7. "A complete inventory of all enzymes in the eukaryotic methionine salvage pathway."
    Pirkov I., Norbeck J., Gustafsson L., Albers E.
    FEBS J. 275:4111-4120(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.

Entry informationi

Entry nameiMTNB_YEAST
AccessioniPrimary (citable) accession number: P47095
Secondary accession number(s): D6VWJ7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1996
Last sequence update: February 1, 1996
Last modified: May 11, 2016
This is version 125 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 952 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 X
    Yeast (Saccharomyces cerevisiae) chromosome X: entries and gene names

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 one 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.