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Reviewed, UniProtKB/Swiss-Prot Q49YJ7 (RIBBA_STAS1)

Last modified June 16, 2009. Version 32. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data | Customize display text xml rdf/xml gff fasta
Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Sequence annotation (Features) · Sequences · References · Cross-references · Entry information · Relevant documents

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Names and origin

Protein namesRecommended name:
    Riboflavin biosynthesis protein ribBA
Including the following 2 domains:
    1- Recommended name:
            3,4-dihydroxy-2-butanone 4-phosphate synthase
                Short name=DHBP synthase
              EC=4.1.99.12
    2- Recommended name:
            GTP cyclohydrolase-2
              EC=3.5.4.25
        Alternative name(s):
            GTP cyclohydrolase II
Gene names
Name: ribBA
Ordered Locus Names: SSP0997
OrganismStaphylococcus saprophyticus subsp. saprophyticus (strain ATCC 15305 / DSM 20229) [Complete proteome] [HAMAP]
Taxonomic identifier342451 [NCBI]
Taxonomic lineageBacteria › Firmicutes › Bacillales › Staphylococcus

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Protein attributes

Sequence length393 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is not processed.
Protein existenceInferred from homology.

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General annotation (Comments)

Function

Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate By similarity.

Catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate (DARP), formate and pyrophosphate By similarity.

Catalytic activity

D-ribulose 5-phosphate = formate + L-3,4-dihydroxybutan-2-one 4-phosphate. HAMAP MF_01283

GTP + 3 H2O = formate + 2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)pyrimidine + diphosphate. HAMAP MF_01283

Cofactor

Binds 2 divalent metal cations per subunit. Magnesium or manganese By similarity.

Binds 1 zinc ion per subunit By similarity.

Pathway

Cofactor biosynthesis; riboflavin biosynthesis; 3,4-dihydroxy-2-butanone 4-phosphate from D-ribulose 5-phosphate: step 1/1. HAMAP MF_01283

Cofactor biosynthesis; riboflavin biosynthesis; 6,7-dimethyl-8-(1-D-ribityl)lumazine from GTP: step 1/4. HAMAP MF_01283

Sequence similarities

In the N-terminal section; belongs to the DHBP synthase family.

In the C-terminal section; belongs to the GTP cyclohydrolase II family.

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Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 393393Riboflavin biosynthesis protein ribBA HAMAP MF_01283
PRO_0000151742

Regions

Nucleotide binding249 – 2535GTP By similarity
Nucleotide binding291 – 2933GTP By similarity
Region1 – 200200DHBP synthase HAMAP MF_01283
Region27 – 282D-ribulose 5-phosphate binding By similarity
Region139 – 1435D-ribulose 5-phosphate binding By similarity
Region201 – 393193GTP cyclohydrolase II HAMAP MF_01283

Sites

Active site3251Proton acceptor; for GTP cyclohydrolase activity Potential
Active site3271Nucleophile; for GTP cyclohydrolase activity By similarity
Metal binding281Magnesium or manganese 1 By similarity
Metal binding281Magnesium or manganese 2 By similarity
Metal binding1421Magnesium or manganese 2 By similarity
Metal binding2541Zinc; catalytic By similarity
Metal binding2651Zinc; catalytic By similarity
Metal binding2671Zinc; catalytic By similarity
Binding site321D-ribulose 5-phosphate By similarity
Binding site1631D-ribulose 5-phosphate By similarity
Binding site2701GTP By similarity
Binding site3131GTP By similarity
Binding site3481GTP By similarity
Binding site3531GTP By similarity
Site1251Essential for DHBP synthase activity By similarity
Site1631Essential for DHBP synthase activity By similarity

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Sequences

Sequence LengthMass (Da)Tools
Q49YJ7-1 [UniParc].

Last modified September 13, 2005. Version 1.
Checksum: BFFE228D8A03691C

FASTA39343,312
        10         20         30         40         50         60 
MQLDSIDTAL QALKKGESII VVDDENRENE GDLVAVTEWM NDNTVNFMAT YGKGLICAPI 

        70         80         90        100        110        120 
SNAIAEKLDL NPMVTHNSDV YGTQFTVSVD HIQTTTGISA DERTMTARAL IDEQATGSDF 

       130        140        150        160        170        180 
NKPGHLFPLI AQDNGVLSRR GHTEASVDLA KLTGAKPAAL ICEIMDEDGT MAKGASLEAF 

       190        200        210        220        230        240 
KETHGLVMIS IEDLEKYRKS SISKLDAKAK VKMPTEYGNF DMYGFTTDNS EEDIVVIANG 

       250        260        270        280        290        300 
DINKTENVRI HSACLTGDIF HSQRCDCGEQ LAASMKYIAE HGGMILYLPQ EGRGIGLINK 

       310        320        330        340        350        360 
LKAYELIEQG YDTVSANIAL GFEEDLRDYQ NAAQILKYFG VDSVNLLSNN PKKFESLESY 

       370        380        390 
GIHIAKRIEL IVPTNAYNQD YMDTKKEKMG HLI

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References

[1]"Whole genome sequence of Staphylococcus saprophyticus reveals the pathogenesis of uncomplicated urinary tract infection."
Kuroda M., Yamashita A., Hirakawa H., Kumano M., Morikawa K., Higashide M., Maruyama A., Inose Y., Matoba K., Toh H., Kuhara S., Hattori M., Ohta T.
Proc. Natl. Acad. Sci. U.S.A. 102:13272-13277(2005) [PubMed: 16135568] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

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Cross-references

Sequence databases

AP008934 Genomic DNA. Translation: BAE18142.1.
RefSeqYP_301087.1.

3D structure databases

ModBaseSearch...

Genome annotation databases

GeneID3615867.
GenomeReviewsGene locus SSP0997 in contig AP008934_GR.
KEGGssp:SSP0997.
NMPDRfig|342451.4.peg.1032.

Organism-specific databases

CMRSearch...

Phylogenomic databases

HOGENOMQ49YJ7.
OMAQ49YJ7. LRCDCRM.

Enzyme and pathway databases

BioCycSSAP342451:SSP0997-MON.

Family and domain databases

HAMAPMF_01283.
[Tree]
InterProIPR017945. DHBP_synth_RibB-like_a/b_dom.
IPR000422. DHBP_synthase_RibB.
IPR000926. GTP_CycHdrlase_II.
IPR016299. Riboflavin_synth_RibA.
[Graphical view]
Gene3DG3DSA:3.90.870.10. DHBP_synth_RibB-like_a/b_dom. 1 hit.
PfamPF00926. DHBP_synthase. 1 hit.
PF00925. GTP_cyclohydro2. 1 hit.
[Graphical view]
PIRSFPIRSF001259. RibA. 1 hit.
ProDomPD003034. DHBP_synthase. 1 hit.
[Graphical view] [Entries sharing at least one domain]
TIGRFAMsTIGR00505. ribA. 1 hit.
TIGR00506. ribB. 1 hit.
ProtoNetSearch...

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Entry information

Entry nameRIBBA_STAS1
AccessionPrimary (citable) accession number: Q49YJ7
Entry history
Integrated into UniProtKB/Swiss-Prot: November 22, 2005
Last sequence update: September 13, 2005
Last modified: June 16, 2009
This is version 32 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation projectHAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)

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Relevant documents

PATHWAY comments

Index of metabolic and biosynthesis pathways

SIMILARITY comments

Index of protein domains and families

Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Sequence annotation (Features) · Sequences · References · Cross-references · Entry information · Relevant documents