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Protein

Diphosphomevalonate decarboxylase

Gene

MVD1

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

Catalytic activityi

ATP + (R)-5-diphosphomevalonate = ADP + phosphate + isopentenyl diphosphate + CO2.

Pathwayi: isopentenyl diphosphate biosynthesis via mevalonate pathway

This protein is involved in step 3 of the subpathway that synthesizes isopentenyl diphosphate from (R)-mevalonate.
Proteins known to be involved in the 3 steps of the subpathway in this organism are:
  1. Mevalonate kinase (ERG12)
  2. Phosphomevalonate kinase (ERG8)
  3. Diphosphomevalonate decarboxylase (MVD1)
This subpathway is part of the pathway isopentenyl diphosphate biosynthesis via mevalonate pathway, which is itself part of Isoprenoid biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes isopentenyl diphosphate from (R)-mevalonate, the pathway isopentenyl diphosphate biosynthesis via mevalonate pathway and in Isoprenoid biosynthesis.

GO - Molecular functioni

  • ATP binding Source: UniProtKB-KW
  • diphosphomevalonate decarboxylase activity Source: SGD

GO - Biological processi

  • isopentenyl diphosphate biosynthetic process, mevalonate pathway Source: GO_Central
  • sterol biosynthetic process Source: SGD
Complete GO annotation...

Keywords - Molecular functioni

Lyase

Keywords - Biological processi

Lipid biosynthesis, Lipid metabolism, Steroid biosynthesis, Steroid metabolism, Sterol biosynthesis, Sterol metabolism

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciMetaCyc:MONOMER-653.
YEAST:MONOMER-653.
YEAST:YNR043W-MONOMER.
BRENDAi4.1.1.33. 984.
ReactomeiR-SCE-191273. Cholesterol biosynthesis.
R-SCE-446199. Synthesis of Dolichyl-phosphate.
SABIO-RKP32377.
UniPathwayiUPA00057; UER00100.

Names & Taxonomyi

Protein namesi
Recommended name:
Diphosphomevalonate decarboxylase (EC:4.1.1.33)
Alternative name(s):
Ergosterol biosynthesis protein 19
Mevalonate pyrophosphate decarboxylase
Mevalonate-5-diphosphate decarboxylase
Short name:
MDD
Short name:
MDDase
Gene namesi
Name:MVD1
Synonyms:ERG19, MPD
Ordered Locus Names:YNR043W
ORF Names:N3427
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XIV

Organism-specific databases

EuPathDBiFungiDB:YNR043W.
SGDiS000005326. MVD1.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 396396Diphosphomevalonate decarboxylasePRO_0000087015Add
BLAST

Proteomic databases

MaxQBiP32377.

PTM databases

iPTMnetiP32377.

Interactioni

Subunit structurei

Homodimer.By similarity

Protein-protein interaction databases

BioGridi35868. 30 interactions.
DIPiDIP-6729N.
IntActiP32377. 2 interactions.
MINTiMINT-630613.

Structurei

Secondary structure

1
396
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi4 – 107Combined sources
Beta strandi13 – 175Combined sources
Beta strandi22 – 243Combined sources
Turni25 – 284Combined sources
Beta strandi29 – 324Combined sources
Beta strandi34 – 396Combined sources
Turni41 – 433Combined sources
Beta strandi46 – 527Combined sources
Turni62 – 643Combined sources
Beta strandi67 – 748Combined sources
Helixi75 – 9016Combined sources
Helixi99 – 1013Combined sources
Beta strandi104 – 1107Combined sources
Helixi120 – 13516Combined sources
Helixi142 – 15312Combined sources
Helixi154 – 1607Combined sources
Beta strandi161 – 1688Combined sources
Beta strandi179 – 1846Combined sources
Helixi186 – 1883Combined sources
Beta strandi192 – 1998Combined sources
Helixi208 – 21811Combined sources
Helixi221 – 2277Combined sources
Helixi229 – 24214Combined sources
Helixi246 – 26520Combined sources
Beta strandi267 – 2693Combined sources
Helixi276 – 29217Combined sources
Beta strandi297 – 3015Combined sources
Beta strandi303 – 3053Combined sources
Beta strandi307 – 3126Combined sources
Helixi313 – 3153Combined sources
Helixi316 – 32712Combined sources
Turni334 – 3363Combined sources
Helixi339 – 35012Combined sources
Helixi363 – 3664Combined sources
Beta strandi367 – 3759Combined sources
Beta strandi389 – 3913Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1FI4X-ray2.27A1-396[»]
ProteinModelPortaliP32377.
SMRiP32377. Positions 3-393.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP32377.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

GeneTreeiENSGT00390000015359.
InParanoidiP32377.
KOiK01597.
OMAiGIECYYT.
OrthoDBiEOG092C4EMB.

Family and domain databases

Gene3Di3.30.230.10. 1 hit.
3.30.70.890. 1 hit.
InterProiIPR013750. GHMP_kinase_C_dom.
IPR006204. GHMP_kinase_N_dom.
IPR005935. Mev_decarb.
IPR029765. Mev_diP_decarb.
IPR020568. Ribosomal_S5_D2-typ_fold.
IPR014721. Ribosomal_S5_D2-typ_fold_subgr.
[Graphical view]
PANTHERiPTHR10977. PTHR10977. 1 hit.
PfamiPF00288. GHMP_kinases_N. 1 hit.
[Graphical view]
PIRSFiPIRSF015950. Mev_P_decrbx. 1 hit.
SUPFAMiSSF54211. SSF54211. 1 hit.
SSF55060. SSF55060. 1 hit.
TIGRFAMsiTIGR01240. mevDPdecarb. 1 hit.

Sequencei

Sequence statusi: Complete.

P32377-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTVYTASVTA PVNIATLKYW GKRDTKLNLP TNSSISVTLS QDDLRTLTSA
60 70 80 90 100
ATAPEFERDT LWLNGEPHSI DNERTQNCLR DLRQLRKEME SKDASLPTLS
110 120 130 140 150
QWKLHIVSEN NFPTAAGLAS SAAGFAALVS AIAKLYQLPQ STSEISRIAR
160 170 180 190 200
KGSGSACRSL FGGYVAWEMG KAEDGHDSMA VQIADSSDWP QMKACVLVVS
210 220 230 240 250
DIKKDVSSTQ GMQLTVATSE LFKERIEHVV PKRFEVMRKA IVEKDFATFA
260 270 280 290 300
KETMMDSNSF HATCLDSFPP IFYMNDTSKR IISWCHTINQ FYGETIVAYT
310 320 330 340 350
FDAGPNAVLY YLAENESKLF AFIYKLFGSV PGWDKKFTTE QLEAFNHQFE
360 370 380 390
SSNFTARELD LELQKDVARV ILTQVGSGPQ ETNESLIDAK TGLPKE
Length:396
Mass (Da):44,116
Last modified:October 1, 1996 - v2
Checksum:i6DDFCC72F1BB6430
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti160 – 1601L → S in AAT93171 (PubMed:17322287).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U49261 mRNA. Translation: AAC49252.1.
X97557 Genomic DNA. Translation: CAA66158.1.
Z71658 Genomic DNA. Translation: CAA96324.1.
AY693152 Genomic DNA. Translation: AAT93171.1.
M81698 Genomic DNA. Translation: AAA34506.2.
BK006947 Genomic DNA. Translation: DAA10584.1.
PIRiS63374.
RefSeqiNP_014441.1. NM_001183220.1.

Genome annotation databases

EnsemblFungiiYNR043W; YNR043W; YNR043W.
GeneIDi855779.
KEGGisce:YNR043W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U49261 mRNA. Translation: AAC49252.1.
X97557 Genomic DNA. Translation: CAA66158.1.
Z71658 Genomic DNA. Translation: CAA96324.1.
AY693152 Genomic DNA. Translation: AAT93171.1.
M81698 Genomic DNA. Translation: AAA34506.2.
BK006947 Genomic DNA. Translation: DAA10584.1.
PIRiS63374.
RefSeqiNP_014441.1. NM_001183220.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1FI4X-ray2.27A1-396[»]
ProteinModelPortaliP32377.
SMRiP32377. Positions 3-393.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi35868. 30 interactions.
DIPiDIP-6729N.
IntActiP32377. 2 interactions.
MINTiMINT-630613.

PTM databases

iPTMnetiP32377.

Proteomic databases

MaxQBiP32377.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYNR043W; YNR043W; YNR043W.
GeneIDi855779.
KEGGisce:YNR043W.

Organism-specific databases

EuPathDBiFungiDB:YNR043W.
SGDiS000005326. MVD1.

Phylogenomic databases

GeneTreeiENSGT00390000015359.
InParanoidiP32377.
KOiK01597.
OMAiGIECYYT.
OrthoDBiEOG092C4EMB.

Enzyme and pathway databases

UniPathwayiUPA00057; UER00100.
BioCyciMetaCyc:MONOMER-653.
YEAST:MONOMER-653.
YEAST:YNR043W-MONOMER.
BRENDAi4.1.1.33. 984.
ReactomeiR-SCE-191273. Cholesterol biosynthesis.
R-SCE-446199. Synthesis of Dolichyl-phosphate.
SABIO-RKP32377.

Miscellaneous databases

EvolutionaryTraceiP32377.
PROiP32377.

Family and domain databases

Gene3Di3.30.230.10. 1 hit.
3.30.70.890. 1 hit.
InterProiIPR013750. GHMP_kinase_C_dom.
IPR006204. GHMP_kinase_N_dom.
IPR005935. Mev_decarb.
IPR029765. Mev_diP_decarb.
IPR020568. Ribosomal_S5_D2-typ_fold.
IPR014721. Ribosomal_S5_D2-typ_fold_subgr.
[Graphical view]
PANTHERiPTHR10977. PTHR10977. 1 hit.
PfamiPF00288. GHMP_kinases_N. 1 hit.
[Graphical view]
PIRSFiPIRSF015950. Mev_P_decrbx. 1 hit.
SUPFAMiSSF54211. SSF54211. 1 hit.
SSF55060. SSF55060. 1 hit.
TIGRFAMsiTIGR01240. mevDPdecarb. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiMVD1_YEAST
AccessioniPrimary (citable) accession number: P32377
Secondary accession number(s): D6W1L8, Q6B1C8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1993
Last sequence update: October 1, 1996
Last modified: September 7, 2016
This is version 152 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 13700 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

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