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Protein

6,7-dimethyl-8-ribityllumazine synthase

Gene

ribH

Organism
Mycobacterium leprae (strain Br4923)
Status
Reviewed-Annotation score: -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

Keywordsi

Molecular functionTransferase
Biological processRiboflavin 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

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
OMAiHGNKGTE
OrthoDBiPOG091H021R

Family and domain databases

CDDicd09209 Lumazine_synthase-I, 1 hit
Gene3Di3.40.50.960, 1 hit
HAMAPiMF_00178 Lumazine_synth, 1 hit
InterProiView protein in InterPro
IPR034964 LS
IPR002180 LS/RS
IPR036467 LS/RS_sf
PANTHERiPTHR21058 PTHR21058, 1 hit
PfamiView protein in Pfam
PF00885 DMRL_synthase, 1 hit
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

Similar proteinsi

Entry informationi

Entry nameiRISB_MYCLB
AccessioniPrimary (citable) accession number: B8ZUN3
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 28, 2009
Last sequence update: March 3, 2009
Last modified: March 28, 2018
This is version 57 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome
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Main funding by: National Institutes of Health