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Protein

Riboflavin biosynthesis protein RibBA

Gene

ribBA

Organism
Desulfovibrio desulfuricans (strain ATCC 27774 / DSM 6949)
Status
Unreviewed-Annotation score: Annotation score: 4 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 annotationSAAS annotation
Catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate (DARP), formate and pyrophosphate.UniRule annotation

Catalytic activityi

D-ribulose 5-phosphate = formate + L-3,4-dihydroxybutan-2-one 4-phosphate.UniRule annotation
GTP + 3 H2O = formate + 2,5-diamino-6-hydroxy-4-(5-phospho-D-ribosylamino)pyrimidine + diphosphate.UniRule annotationSAAS 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), Riboflavin biosynthesis protein RibBA (ribBA)
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.

Pathwayi: riboflavin biosynthesis

This protein is involved in step 1 of the subpathway that synthesizes 5-amino-6-(D-ribitylamino)uracil from GTP.SAAS annotation
Proteins known to be involved in the 4 steps of the subpathway in this organism are:
  1. Riboflavin biosynthesis protein RibBA (ribBA)
  2. Riboflavin biosynthesis protein RibD (Ddes_1619)
  3. Riboflavin biosynthesis protein RibD (Ddes_1619)
  4. 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 5-amino-6-(D-ribitylamino)uracil from GTP, the pathway riboflavin biosynthesis and in Cofactor biosynthesis.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi28Magnesium or manganese 1UniRule annotation1
Metal bindingi28Magnesium or manganese 2UniRule annotation1
Binding sitei32D-ribulose 5-phosphateUniRule annotation1
Sitei126Essential for DHBP synthase activityUniRule annotation1
Binding sitei164D-ribulose 5-phosphateUniRule annotation1
Sitei164Essential for DHBP synthase activityUniRule annotation1
Metal bindingi258Zinc; catalyticUniRule annotation1
Metal bindingi269Zinc; catalyticUniRule annotation1
Metal bindingi271Zinc; catalyticUniRule annotation1
Binding sitei274GTPUniRule annotation1
Binding sitei318GTPUniRule annotation1
Active sitei330Proton acceptor; for GTP cyclohydrolase activityUniRule annotation1
Active sitei332Nucleophile; for GTP cyclohydrolase activityUniRule annotation1
Binding sitei353GTPUniRule annotation1
Binding sitei358GTPUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi253 – 257GTPUniRule annotation5
Nucleotide bindingi296 – 298GTPUniRule annotation3

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

HydrolaseUniRule annotationImported, LyaseUniRule annotationSAAS annotation

Keywords - Biological processi

Riboflavin biosynthesisUniRule annotationSAAS annotation

Keywords - Ligandi

GTP-bindingUniRule annotationSAAS annotation, MagnesiumUniRule annotation, ManganeseUniRule annotation, Metal-bindingUniRule annotationSAAS annotation, Nucleotide-binding, ZincUniRule annotationSAAS annotation

Enzyme and pathway databases

UniPathwayiUPA00275; UER00399.
UPA00275; UER00400.

Names & Taxonomyi

Protein namesi
Recommended name:
Riboflavin biosynthesis protein RibBAUniRule annotationSAAS annotation
Gene namesi
Name:ribBAUniRule annotation
Ordered Locus Names:Ddes_2136Imported
OrganismiDesulfovibrio desulfuricans (strain ATCC 27774 / DSM 6949)Imported
Taxonomic identifieri525146 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaDeltaproteobacteriaDesulfovibrionalesDesulfovibrionaceaeDesulfovibrio
Proteomesi
  • UP000002598 Componenti: Chromosome

Interactioni

Protein-protein interaction databases

STRINGi525146.Ddes_2136.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini210 – 374GTP_cyclohydro2InterPro annotationAdd BLAST165

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni1 – 201DHBP synthaseUniRule annotationAdd BLAST201
Regioni27 – 28D-ribulose 5-phosphate bindingUniRule annotation2
Regioni202 – 404GTP cyclohydrolase IIUniRule annotationAdd BLAST203

Sequence similaritiesi

In the C-terminal section; belongs to the GTP cyclohydrolase II family.UniRule annotationSAAS annotation
In the N-terminal section; belongs to the DHBP synthase family.UniRule annotationSAAS annotation

Phylogenomic databases

eggNOGiENOG4105C66. Bacteria.
COG0108. LUCA.
COG0807. LUCA.
HOGENOMiHOG000115440.
KOiK14652.
OMAiRGFFKLP.
OrthoDBiPOG091H008U.

Family and domain databases

CDDicd00641. GTP_cyclohydro2. 1 hit.
Gene3Di3.90.870.10. 1 hit.
HAMAPiMF_00179. RibA. 1 hit.
MF_00180. RibB. 1 hit.
MF_01283. RibBA. 1 hit.
InterProiIPR017945. DHBP_synth_RibB-like_a/b_dom.
IPR000422. DHBP_synthase_RibB.
IPR032677. GTP_cyclohydro_II.
IPR000926. RibA.
IPR016299. Riboflavin_synth_RibBA.
[Graphical view]
PfamiPF00926. DHBP_synthase. 1 hit.
PF00925. GTP_cyclohydro2. 1 hit.
[Graphical view]
SUPFAMiSSF142695. SSF142695. 1 hit.
SSF55821. SSF55821. 1 hit.
TIGRFAMsiTIGR00505. ribA. 1 hit.
TIGR00506. ribB. 1 hit.

Sequencei

Sequence statusi: Complete.

B8J3Y7-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPLCSIEEAV ADIKQGKMVI LVDDEGRENE GDLTMAAEFV TPEAINFMAK
60 70 80 90 100
YGRGLICLPM SPEMIDRLDL PLMTQRNGSR FGTNFTISIE AREGVTTGIS
110 120 130 140 150
AADRATTILA AVGDDVRPDD LVTPGHVFPL RAKAGGVLSR AGQTEGGVDL
160 170 180 190 200
SKLAGLKPAS VICEIMRDDG TMARMPDLET FAEEHGLKIV AVKDIIRHRL
210 220 230 240 250
NRGQVSVRNV AKAHLPTRFG DFTVYAYESE TEQGTHLALV KGDLSGPEPV
260 270 280 290 300
LARVHSECLT GDALGSLRCD CGGQLGAALR QIEKEGRGAL LYMRQEGRGI
310 320 330 340 350
GLANKIRAYA LQDEGYDTVE ANRKLGFPPD LRDYGTGAQM LVDLGIHKVR
360 370 380 390 400
LLTNNPKKIV GLSGYGIEIV ERVPIEMDAC PENEHYLRTK KEKMQHMLHC

SCCR
Length:404
Mass (Da):44,044
Last modified:March 3, 2009 - v1
Checksum:iD4526371C276D7E5
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001358 Genomic DNA. Translation: ACL50032.1.
RefSeqiWP_015939141.1. NC_011883.1.

Genome annotation databases

EnsemblBacteriaiACL50032; ACL50032; Ddes_2136.
KEGGidds:Ddes_2136.
PATRICi21738316. VBIDesDes50650_2490.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001358 Genomic DNA. Translation: ACL50032.1.
RefSeqiWP_015939141.1. NC_011883.1.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi525146.Ddes_2136.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACL50032; ACL50032; Ddes_2136.
KEGGidds:Ddes_2136.
PATRICi21738316. VBIDesDes50650_2490.

Phylogenomic databases

eggNOGiENOG4105C66. Bacteria.
COG0108. LUCA.
COG0807. LUCA.
HOGENOMiHOG000115440.
KOiK14652.
OMAiRGFFKLP.
OrthoDBiPOG091H008U.

Enzyme and pathway databases

UniPathwayiUPA00275; UER00399.
UPA00275; UER00400.

Family and domain databases

CDDicd00641. GTP_cyclohydro2. 1 hit.
Gene3Di3.90.870.10. 1 hit.
HAMAPiMF_00179. RibA. 1 hit.
MF_00180. RibB. 1 hit.
MF_01283. RibBA. 1 hit.
InterProiIPR017945. DHBP_synth_RibB-like_a/b_dom.
IPR000422. DHBP_synthase_RibB.
IPR032677. GTP_cyclohydro_II.
IPR000926. RibA.
IPR016299. Riboflavin_synth_RibBA.
[Graphical view]
PfamiPF00926. DHBP_synthase. 1 hit.
PF00925. GTP_cyclohydro2. 1 hit.
[Graphical view]
SUPFAMiSSF142695. SSF142695. 1 hit.
SSF55821. SSF55821. 1 hit.
TIGRFAMsiTIGR00505. ribA. 1 hit.
TIGR00506. ribB. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiB8J3Y7_DESDA
AccessioniPrimary (citable) accession number: B8J3Y7
Entry historyi
Integrated into UniProtKB/TrEMBL: March 3, 2009
Last sequence update: March 3, 2009
Last modified: November 30, 2016
This is version 61 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Multifunctional enzymeUniRule annotation, Reference proteomeImported

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.