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Protein

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

Gene

ribB

Organism
Shigella flexneri
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

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

Catalytic activityi

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

Cofactori

Mg2+UniRule annotation, Mn2+UniRule annotationNote: Binds 2 divalent metal cations per subunit. Magnesium or manganese.UniRule annotation

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.UniRule annotation
Proteins known to be involved in this subpathway in this organism are:
  1. 3,4-dihydroxy-2-butanone 4-phosphate synthase (ribB)
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 bindingi38Magnesium or manganese 1UniRule annotation1
Metal bindingi38Magnesium or manganese 2UniRule annotation1
Binding sitei42SubstrateUniRule annotation1
Sitei136Essential for catalytic activityUniRule annotation1
Metal bindingi153Magnesium or manganese 2UniRule annotation1
Binding sitei174SubstrateUniRule annotation1
Sitei174Essential for catalytic activityUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Lyase

Keywords - Biological processi

Riboflavin biosynthesis

Keywords - Ligandi

Magnesium, Manganese, Metal-binding

Enzyme and pathway databases

UniPathwayiUPA00275; UER00399.

Names & Taxonomyi

Protein namesi
Recommended name:
3,4-dihydroxy-2-butanone 4-phosphate synthaseUniRule annotation (EC:4.1.99.12UniRule annotation)
Short name:
DHBP synthaseUniRule annotation
Gene namesi
Name:ribBUniRule annotation
Synonyms:htrP
Ordered Locus Names:SF3081, S3286
OrganismiShigella flexneri
Taxonomic identifieri623 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeShigella
Proteomesi
  • UP000002673 Componenti: Chromosome
  • UP000001006 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001518121 – 2173,4-dihydroxy-2-butanone 4-phosphate synthaseAdd BLAST217

Proteomic databases

PaxDbiP0A7J2.
PRIDEiP0A7J2.

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi198214.SF3081.

Structurei

3D structure databases

ProteinModelPortaliP0A7J2.
SMRiP0A7J2.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni37 – 38Substrate bindingUniRule annotation2
Regioni150 – 154Substrate bindingUniRule annotation5

Sequence similaritiesi

Belongs to the DHBP synthase family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105C66. Bacteria.
COG0108. LUCA.
HOGENOMiHOG000115444.
KOiK02858.
OMAiQMAKLIR.

Family and domain databases

Gene3Di3.90.870.10. 1 hit.
HAMAPiMF_00180. RibB. 1 hit.
InterProiIPR017945. DHBP_synth_RibB-like_a/b_dom.
IPR000422. DHBP_synthase_RibB.
[Graphical view]
PfamiPF00926. DHBP_synthase. 1 hit.
[Graphical view]
SUPFAMiSSF55821. SSF55821. 1 hit.
TIGRFAMsiTIGR00506. ribB. 1 hit.

Sequencei

Sequence statusi: Complete.

P0A7J2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNQTLLSSFG TPFERVENAL AALREGRGVM VLDDEDRENE GDMIFPAETM
60 70 80 90 100
TVEQMALTIR HGSGIVCLCI TEDRRKQLDL PMMVENNTSA YGTGFTVTIE
110 120 130 140 150
AAEGVTTGVS AADRITTVRA AIADGAKPSD LNRPGHVFPL RAQAGGVLTR
160 170 180 190 200
GGHTEATIDL MTLAGFKPAG VLCELTNDDG TMARAPECIE FANKHNMALV
210
TIEDLVAYRQ AHERKAS
Length:217
Mass (Da):23,353
Last modified:June 7, 2005 - v1
Checksum:i6833C120A1442608
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE005674 Genomic DNA. Translation: AAN44559.1.
AE014073 Genomic DNA. Translation: AAP18372.1.
RefSeqiNP_708852.1. NC_004337.2.
WP_001076997.1. NZ_LVJC01000050.1.

Genome annotation databases

EnsemblBacteriaiAAN44559; AAN44559; SF3081.
AAP18372; AAP18372; S3286.
GeneIDi1026655.
KEGGisfl:SF3081.
sft:NCTC1_03337.
sfx:S3286.
PATRICi18708292. VBIShiFle31049_3594.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE005674 Genomic DNA. Translation: AAN44559.1.
AE014073 Genomic DNA. Translation: AAP18372.1.
RefSeqiNP_708852.1. NC_004337.2.
WP_001076997.1. NZ_LVJC01000050.1.

3D structure databases

ProteinModelPortaliP0A7J2.
SMRiP0A7J2.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi198214.SF3081.

Proteomic databases

PaxDbiP0A7J2.
PRIDEiP0A7J2.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAN44559; AAN44559; SF3081.
AAP18372; AAP18372; S3286.
GeneIDi1026655.
KEGGisfl:SF3081.
sft:NCTC1_03337.
sfx:S3286.
PATRICi18708292. VBIShiFle31049_3594.

Phylogenomic databases

eggNOGiENOG4105C66. Bacteria.
COG0108. LUCA.
HOGENOMiHOG000115444.
KOiK02858.
OMAiQMAKLIR.

Enzyme and pathway databases

UniPathwayiUPA00275; UER00399.

Family and domain databases

Gene3Di3.90.870.10. 1 hit.
HAMAPiMF_00180. RibB. 1 hit.
InterProiIPR017945. DHBP_synth_RibB-like_a/b_dom.
IPR000422. DHBP_synthase_RibB.
[Graphical view]
PfamiPF00926. DHBP_synthase. 1 hit.
[Graphical view]
SUPFAMiSSF55821. SSF55821. 1 hit.
TIGRFAMsiTIGR00506. ribB. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiRIBB_SHIFL
AccessioniPrimary (citable) accession number: P0A7J2
Secondary accession number(s): P24199
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 7, 2005
Last sequence update: June 7, 2005
Last modified: November 2, 2016
This is version 75 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families

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.