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Protein

3,4-dihydroxy-2-butanone 4-phosphate synthase

Gene

RIB3

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

Functioni

Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate.By similarity

Miscellaneous

Present with 5460 molecules/cell in log phase SD medium.1 Publication

Catalytic activityi

D-ribulose 5-phosphate = formate + L-3,4-dihydroxybutan-2-one 4-phosphate.

Cofactori

Mg2+By similarity, Mn2+By similarityNote: Binds 2 divalent metal cations per subunit. Magnesium or manganese.By similarity

Pathwayi: riboflavin biosynthesis

This protein is involved in step 1 of the subpathway that synthesizes 2-hydroxy-3-oxobutyl phosphate from D-ribulose 5-phosphate.
Proteins known to be involved in this subpathway in this organism are:
  1. 3,4-dihydroxy-2-butanone 4-phosphate synthase (RIB3)
This subpathway is part of the pathway riboflavin biosynthesis, which is itself part of Cofactor biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes 2-hydroxy-3-oxobutyl phosphate from D-ribulose 5-phosphate, the pathway riboflavin biosynthesis and in Cofactor biosynthesis.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi27Magnesium or manganese 1By similarity1
Metal bindingi27Magnesium or manganese 2By similarity1
Binding sitei31SubstrateBy similarity1
Sitei131Essential for catalytic activityBy similarity1
Metal bindingi148Magnesium or manganese 2By similarity1
Binding sitei169SubstrateBy similarity1
Sitei169Essential for catalytic activityBy similarity1

GO - Molecular functioni

  • 3,4-dihydroxy-2-butanone-4-phosphate synthase activity Source: SGD
  • metal ion binding Source: UniProtKB-KW

GO - Biological processi

  • aerobic respiration Source: SGD
  • riboflavin biosynthetic process Source: SGD

Keywordsi

Molecular functionLyase
Biological processRiboflavin biosynthesis
LigandMagnesium, Manganese, Metal-binding

Enzyme and pathway databases

BioCyciYEAST:MONOMER3O-89
UniPathwayiUPA00275; UER00399

Names & Taxonomyi

Protein namesi
Recommended name:
3,4-dihydroxy-2-butanone 4-phosphate synthase (EC:4.1.99.12)
Short name:
DHBP synthase
Gene namesi
Name:RIB3
Ordered Locus Names:YDR487C
ORF Names:D8035.30
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome IV

Organism-specific databases

EuPathDBiFungiDB:YDR487C
SGDiS000002895 RIB3

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; Source: COMPARTMENTS

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001518291 – 2083,4-dihydroxy-2-butanone 4-phosphate synthaseAdd BLAST208

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei3PhosphothreonineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiQ99258
PaxDbiQ99258
PRIDEiQ99258

PTM databases

iPTMnetiQ99258

Interactioni

Subunit structurei

Homodimer.By similarity

Protein-protein interaction databases

BioGridi32539, 13 interactors
DIPiDIP-4316N
IntActiQ99258, 1 interactor
MINTiQ99258
STRINGi4932.YDR487C

Structurei

3D structure databases

ProteinModelPortaliQ99258
SMRiQ99258
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni26 – 27Substrate bindingBy similarity2
Regioni145 – 149Substrate bindingBy similarity5

Sequence similaritiesi

Belongs to the DHBP synthase family.Curated

Phylogenomic databases

HOGENOMiHOG000115444
InParanoidiQ99258
KOiK02858
OMAiVVCEMLD
OrthoDBiEOG092C42BA

Family and domain databases

InterProiView protein in InterPro
IPR017945 DHBP_synth_RibB-like_a/b_dom
IPR000422 DHBP_synthase_RibB
PfamiView protein in Pfam
PF00926 DHBP_synthase, 1 hit
SUPFAMiSSF55821 SSF55821, 1 hit
TIGRFAMsiTIGR00506 ribB, 1 hit

Sequencei

Sequence statusi: Complete.

Q99258-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MFTPIDQAIE HFKQNKFVIV MDDAGRENEG DLICAAENVS TEQMAFLVRH
60 70 80 90 100
SSGYVCAPMT NAIADKLDLP LLRTGMKFES NDDDRHGTAY TITVDVAQGT
110 120 130 140 150
TTGISAHDRS MTCRALADSS STPKSFLKPG HICPLRAADG GVLQRRGHTE
160 170 180 190 200
AGVDLCKLSG LSPVAVIGEL VNDDEQGTMM RLNDCQAFGK KHGIPLISIE

ELAQYLKK
Length:208
Mass (Da):22,568
Last modified:November 1, 1996 - v1
Checksum:iECA30183FAFCBA9E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z21619 Genomic DNA Translation: CAA79743.1
U33050 Genomic DNA Translation: AAB64927.1
AY557810 Genomic DNA Translation: AAS56136.1
BK006938 Genomic DNA Translation: DAA12320.1
PIRiS50973
RefSeqiNP_010775.1, NM_001180795.1

Genome annotation databases

EnsemblFungiiYDR487C; YDR487C; YDR487C
GeneIDi852098
KEGGisce:YDR487C

Similar proteinsi

Entry informationi

Entry nameiRIB3_YEAST
AccessioniPrimary (citable) accession number: Q99258
Secondary accession number(s): D6VTB0
Entry historyiIntegrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: November 1, 1996
Last modified: May 23, 2018
This is version 146 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

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