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Protein

6,7-dimethyl-8-ribityllumazine synthase

Gene

ribH

Organism
Agrobacterium fabrum (strain C58 / ATCC 33970) (Agrobacterium tumefaciens (strain C58))
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Catalyzes the formation of 6,7-dimethyl-8-ribityllumazine by condensation of 5-amino-6-(D-ribitylamino)uracil with 3,4-dihydroxy-2-butanone 4-phosphate. This is the penultimate step in the biosynthesis of riboflavin.UniRule annotation

Catalytic activityi

1-deoxy-L-glycero-tetrulose 4-phosphate + 5-amino-6-(D-ribitylamino)uracil = 6,7-dimethyl-8-(D-ribityl)lumazine + 2 H2O + phosphate.UniRule annotation

Pathwayi: riboflavin biosynthesis

This protein is involved in step 1 of the subpathway that synthesizes riboflavin from 2-hydroxy-3-oxobutyl phosphate and 5-amino-6-(D-ribitylamino)uracil.UniRule annotation
Proteins known to be involved in the 2 steps of the subpathway in this organism are:
  1. 6,7-dimethyl-8-ribityllumazine synthase (ribH)
  2. no protein annotated in this organism
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 riboflavin from 2-hydroxy-3-oxobutyl phosphate and 5-amino-6-(D-ribitylamino)uracil, the pathway riboflavin biosynthesis and in Cofactor biosynthesis.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei13 – 1315-amino-6-(D-ribitylamino)uracilUniRule annotation
Active sitei81 – 811Proton donorUniRule annotation
Binding sitei106 – 10615-amino-6-(D-ribitylamino)uracil; via amide nitrogen and carbonyl oxygenUniRule annotation
Binding sitei120 – 12011-deoxy-L-glycero-tetrulose 4-phosphateUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Transferase

Keywords - Biological processi

Riboflavin biosynthesis

Enzyme and pathway databases

BioCyciAGRO:ATU1171-MONOMER.
RETL1328306-WGS:GSTH-1542-MONOMER.
BRENDAi2.5.1.78. 200.
UniPathwayiUPA00275; UER00404.

Names & Taxonomyi

Protein namesi
Recommended name:
6,7-dimethyl-8-ribityllumazine synthaseUniRule annotation (EC:2.5.1.78UniRule annotation)
Short name:
DMRL synthaseUniRule annotation
Short name:
LSUniRule annotation
Short name:
Lumazine synthaseUniRule annotation
Gene namesi
Name:ribHUniRule annotation
Ordered Locus Names:Atu1171
ORF Names:AGR_C_2165
OrganismiAgrobacterium fabrum (strain C58 / ATCC 33970) (Agrobacterium tumefaciens (strain C58))
Taxonomic identifieri176299 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesRhizobiaceaeRhizobium/Agrobacterium groupAgrobacteriumAgrobacterium tumefaciens complex
Proteomesi
  • UP000000813 Componenti: Chromosome circular

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 1481486,7-dimethyl-8-ribityllumazine synthasePRO_0000134706Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi176299.Atu1171.

Structurei

3D structure databases

ProteinModelPortaliQ8UG70.
SMRiQ8UG70. Positions 4-148.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni44 – 4635-amino-6-(D-ribitylamino)uracil bindingUniRule annotation
Regioni73 – 7535-amino-6-(D-ribitylamino)uracil bindingUniRule annotation
Regioni78 – 7921-deoxy-L-glycero-tetrulose 4-phosphate bindingUniRule annotation

Sequence similaritiesi

Belongs to the DMRL synthase family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4108UTT. Bacteria.
COG0054. LUCA.
HOGENOMiHOG000229250.
KOiK00794.
OrthoDBiEOG6RC3WC.

Family and domain databases

Gene3Di3.40.50.960. 1 hit.
HAMAPiMF_00178. Lumazine_synth.
InterProiIPR002180. DMRL_synthase.
[Graphical view]
PANTHERiPTHR21058. PTHR21058. 1 hit.
PfamiPF00885. DMRL_synthase. 1 hit.
[Graphical view]
SUPFAMiSSF52121. SSF52121. 1 hit.
TIGRFAMsiTIGR00114. lumazine-synth. 1 hit.

Sequencei

Sequence statusi: Complete.

Q8UG70-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSKPHLLIVE ARFYDDMADA LLEGAKFALE EAGATYDVIT VPGALEIPAA
60 70 80 90 100
IAMALDGADN DGTEYDGFVA LGMVIRGETY HFDIVSNESS RALMDLAVSE
110 120 130 140
SLPIGNGILT VENDEQAWAR VRRSDKDKGG FAARAALTMI ELKKKLGG
Length:148
Mass (Da):15,850
Last modified:June 1, 2002 - v1
Checksum:i32FBE7BBEE7A8839
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE007869 Genomic DNA. Translation: AAK86974.1.
PIRiAI2720.
E97502.
RefSeqiNP_354189.1. NC_003062.2.
WP_006312824.1. NC_003062.2.

Genome annotation databases

EnsemblBacteriaiAAK86974; AAK86974; Atu1171.
GeneIDi1133209.
KEGGiatu:Atu1171.
PATRICi20812101. VBIAgrTum91616_1191.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE007869 Genomic DNA. Translation: AAK86974.1.
PIRiAI2720.
E97502.
RefSeqiNP_354189.1. NC_003062.2.
WP_006312824.1. NC_003062.2.

3D structure databases

ProteinModelPortaliQ8UG70.
SMRiQ8UG70. Positions 4-148.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi176299.Atu1171.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAK86974; AAK86974; Atu1171.
GeneIDi1133209.
KEGGiatu:Atu1171.
PATRICi20812101. VBIAgrTum91616_1191.

Phylogenomic databases

eggNOGiENOG4108UTT. Bacteria.
COG0054. LUCA.
HOGENOMiHOG000229250.
KOiK00794.
OrthoDBiEOG6RC3WC.

Enzyme and pathway databases

UniPathwayiUPA00275; UER00404.
BioCyciAGRO:ATU1171-MONOMER.
RETL1328306-WGS:GSTH-1542-MONOMER.
BRENDAi2.5.1.78. 200.

Family and domain databases

Gene3Di3.40.50.960. 1 hit.
HAMAPiMF_00178. Lumazine_synth.
InterProiIPR002180. DMRL_synthase.
[Graphical view]
PANTHERiPTHR21058. PTHR21058. 1 hit.
PfamiPF00885. DMRL_synthase. 1 hit.
[Graphical view]
SUPFAMiSSF52121. SSF52121. 1 hit.
TIGRFAMsiTIGR00114. lumazine-synth. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: C58 / ATCC 33970.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: C58 / ATCC 33970.

Entry informationi

Entry nameiRISB_AGRFC
AccessioniPrimary (citable) accession number: Q8UG70
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 7, 2004
Last sequence update: June 1, 2002
Last modified: November 11, 2015
This is version 79 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, Reference 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.