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Protein

Riboflavin biosynthesis protein RibBA

Gene

ribA

Organism
Rhodococcus opacus (strain B4)
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. Riboflavin biosynthesis protein RibBA (ribA), Riboflavin biosynthesis protein RibBA (ribA)
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. GTP cyclohydrolase-2 (ribA), Riboflavin biosynthesis protein RibBA (ribA), Riboflavin biosynthesis protein RibBA (ribA), GTP cyclohydrolase-2 (ribA)
  2. no protein annotated in this organism
  3. no protein annotated in this organism
  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 bindingi29Magnesium or manganese 1UniRule annotation1
Metal bindingi29Magnesium or manganese 2UniRule annotation1
Binding sitei33D-ribulose 5-phosphateUniRule annotation1
Sitei127Essential for DHBP synthase activityUniRule annotation1
Metal bindingi144Magnesium or manganese 2UniRule annotation1
Binding sitei165D-ribulose 5-phosphateUniRule annotation1
Sitei165Essential for DHBP synthase activityUniRule annotation1
Metal bindingi264Zinc; catalyticUniRule annotation1
Metal bindingi275Zinc; catalyticUniRule annotation1
Metal bindingi277Zinc; catalyticUniRule annotation1
Binding sitei280GTPUniRule annotation1
Binding sitei325GTPUniRule annotation1
Active sitei337Proton acceptor; for GTP cyclohydrolase activityUniRule annotation1
Active sitei339Nucleophile; for GTP cyclohydrolase activityUniRule annotation1
Binding sitei360GTPUniRule annotation1
Binding sitei365GTPUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi259 – 263GTPUniRule annotation5
Nucleotide bindingi303 – 305GTPUniRule 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:ribAImported
Synonyms:ribBAUniRule annotation
Ordered Locus Names:ROP_69510Imported
OrganismiRhodococcus opacus (strain B4)Imported
Taxonomic identifieri632772 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaCorynebacterialesNocardiaceaeRhodococcus
Proteomesi
  • UP000002212 Componenti: Chromosome

Interactioni

Protein-protein interaction databases

STRINGi632772.ROP_69510.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini211 – 380GTP_cyclohydro2InterPro annotationAdd BLAST170

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni1 – 204DHBP synthaseUniRule annotationAdd BLAST204
Regioni28 – 29D-ribulose 5-phosphate bindingUniRule annotation2
Regioni141 – 145D-ribulose 5-phosphate bindingUniRule annotation5
Regioni205 – 417GTP cyclohydrolase IIUniRule annotationAdd BLAST213

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.
OMAiLMVDRNT.
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.

C1B4K9-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTRFDTIERA VADIAAGKAV VVVDDEDREN EGDLIFAAEK ATPELVAFMV
60 70 80 90 100
RYTSGYLCVP LDGADCDRLG LPPMYATNQD KHGTAYTVTV DAREGIGTGI
110 120 130 140 150
SASDRAATMR LLADPSSGAQ DFTRPGHVVP LRAKEGGVLR RPGHTEAAVD
160 170 180 190 200
LARMADLRPA GVICEIVSQK DEGHMAQTDE LRVFADDHDL ALISIADLIA
210 220 230 240 250
WRRKHEKHVE RVASARIPTR HGEFTAVGYR SIYDDVEHVA LVRGDLPGPD
260 270 280 290 300
GDGSDVLVRV HSECLTGDVF GSLRCDCGPQ LDAALDMVAQ EGRGVVLYMR
310 320 330 340 350
GHEGRGIGLM HKLQAYQLQD AGSDTVDANL ELGLPADARD YGIGAQILVD
360 370 380 390 400
LGISSMRLLT NNPAKRVGLD GYGLQITERV SMPLRANAEN LTYLRTKRDR
410
MGHDLIGLDD FEAGEML
Length:417
Mass (Da):45,184
Last modified:May 26, 2009 - v1
Checksum:i96C9BD0ECEC2F875
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP011115 Genomic DNA. Translation: BAH55198.1.
RefSeqiWP_015890624.1. NC_012522.1.

Genome annotation databases

EnsemblBacteriaiBAH55198; BAH55198; ROP_69510.
KEGGirop:ROP_69510.
PATRICi23231355. VBIRhoOpa21106_7036.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP011115 Genomic DNA. Translation: BAH55198.1.
RefSeqiWP_015890624.1. NC_012522.1.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi632772.ROP_69510.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAH55198; BAH55198; ROP_69510.
KEGGirop:ROP_69510.
PATRICi23231355. VBIRhoOpa21106_7036.

Phylogenomic databases

eggNOGiENOG4105C66. Bacteria.
COG0108. LUCA.
COG0807. LUCA.
HOGENOMiHOG000115440.
KOiK14652.
OMAiLMVDRNT.
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 nameiC1B4K9_RHOOB
AccessioniPrimary (citable) accession number: C1B4K9
Entry historyi
Integrated into UniProtKB/TrEMBL: May 26, 2009
Last sequence update: May 26, 2009
Last modified: November 30, 2016
This is version 62 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteomeImported, Multifunctional enzymeUniRule annotation

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.