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Protein

6,7-dimethyl-8-ribityllumazine synthase

Gene

ribH

Organism
Mycobacterium leprae (strain Br4923)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

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)DescriptionActionsGraphical viewLength
Binding sitei275-amino-6-(D-ribitylamino)uracilUniRule annotation1
Active sitei89Proton donorUniRule annotation1
Binding sitei1145-amino-6-(D-ribitylamino)uracil; via amide nitrogen and carbonyl oxygenUniRule annotation1
Binding sitei1281-deoxy-L-glycero-tetrulose 4-phosphateUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Transferase

Keywords - Biological processi

Riboflavin biosynthesis

Enzyme and pathway databases

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:MLBr00560
OrganismiMycobacterium leprae (strain Br4923)
Taxonomic identifieri561304 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaCorynebacterialesMycobacteriaceaeMycobacterium
Proteomesi
  • UP000006900 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_10001955041 – 1606,7-dimethyl-8-ribityllumazine synthaseAdd BLAST160

Interactioni

Subunit structurei

Homopentamer.UniRule annotation

Structurei

Secondary structure

1160
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi20 – 24Combined sources5
Helixi29 – 45Combined sources17
Beta strandi52 – 55Combined sources4
Helixi59 – 61Combined sources3
Helixi62 – 70Combined sources9
Beta strandi74 – 83Combined sources10
Helixi89 – 108Combined sources20
Beta strandi112 – 121Combined sources10
Helixi122 – 126Combined sources5
Helixi138 – 157Combined sources20

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4J07X-ray1.95A/B/C/D/E1-160[»]
ProteinModelPortaliB8ZUN3.
SMRiB8ZUN3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni59 – 615-amino-6-(D-ribitylamino)uracil bindingUniRule annotation3
Regioni81 – 835-amino-6-(D-ribitylamino)uracil bindingUniRule annotation3
Regioni86 – 871-deoxy-L-glycero-tetrulose 4-phosphate bindingUniRule annotation2

Sequence similaritiesi

Belongs to the DMRL synthase family.UniRule annotation

Phylogenomic databases

KOiK00794.
OMAiTVCNDSS.
OrthoDBiPOG091H021R.

Family and domain databases

Gene3Di3.40.50.960. 1 hit.
HAMAPiMF_00178. Lumazine_synth. 1 hit.
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.

B8ZUN3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSGGAGIPEV PGIDASGLRL GIVASTWHSR ICDALLAGAR KVAADSGIDG
60 70 80 90 100
PTVVRVLGAI EIPVVVQELA RHHDAVVALG VVIRGDTPHF DYVCNSVTQG
110 120 130 140 150
LTRIALDTST PVGNGVLTTN TEKQALDRAG LPTSAEDKGA QAAAAALTTA
160
LTLLNLRSRI
Length:160
Mass (Da):16,337
Last modified:March 3, 2009 - v1
Checksum:iEB4A8BDEDB8B026C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
FM211192 Genomic DNA. Translation: CAR70653.1.
RefSeqiWP_010907798.1. NC_011896.1.

Genome annotation databases

EnsemblBacteriaiCAR70653; CAR70653; MLBr00560.
KEGGimlb:MLBr00560.
PATRICi18041474. VBIMycLep121698_0968.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
FM211192 Genomic DNA. Translation: CAR70653.1.
RefSeqiWP_010907798.1. NC_011896.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4J07X-ray1.95A/B/C/D/E1-160[»]
ProteinModelPortaliB8ZUN3.
SMRiB8ZUN3.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAR70653; CAR70653; MLBr00560.
KEGGimlb:MLBr00560.
PATRICi18041474. VBIMycLep121698_0968.

Phylogenomic databases

KOiK00794.
OMAiTVCNDSS.
OrthoDBiPOG091H021R.

Enzyme and pathway databases

UniPathwayiUPA00275; UER00404.

Family and domain databases

Gene3Di3.40.50.960. 1 hit.
HAMAPiMF_00178. Lumazine_synth. 1 hit.
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...

Entry informationi

Entry nameiRISB_MYCLB
AccessioniPrimary (citable) accession number: B8ZUN3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 28, 2009
Last sequence update: March 3, 2009
Last modified: November 2, 2016
This is version 50 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

3D-structure, Complete 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

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.