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UniProtKB - P17620 (RIBBA_BACSU)

Entry version 147 (26 Feb 2020)
Sequence version 1 (01 Aug 1990)
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Protein

Riboflavin biosynthesis protein RibBA

Gene

ribBA

Organism
Bacillus subtilis (strain 168)
Status
Reviewed-Annotation score:

Annotation score:5 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>-Protein inferred from homologyi <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate.UniRule annotation
Catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate (DARP), formate and pyrophosphate.UniRule annotation

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>Catalytic activityi

<p>This subsection of the 'Function' section provides information relevant to cofactors. A cofactor is any non-protein substance required for a protein to be catalytically active. Some cofactors are inorganic, such as the metal atoms zinc, iron, and copper in various oxidation states. Others, such as most vitamins, are organic.<p><a href='/help/cofactor' target='_top'>More...</a></p>Cofactori

Protein has several cofactor binding sites:

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section describes the metabolic pathway(s) associated with a protein.<p><a href='/help/pathway' target='_top'>More...</a></p>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 (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.UniRule 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 (ribD)
  3. Riboflavin biosynthesis protein RibD (ribD)
  4. 5-amino-6-(5-phospho-D-ribitylamino)uracil phosphatase YitU (yitU), 5-amino-6-(5-phospho-D-ribitylamino)uracil phosphatase YcsE (ycsE), 5-amino-6-(5-phospho-D-ribitylamino)uracil phosphatase YwtE (ywtE)
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
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section indicates at which position the protein binds a given metal ion. The nature of the metal is indicated in the 'Description' field.<p><a href='/help/metal' target='_top'>More...</a></p>Metal bindingi27Magnesium or manganese 1UniRule annotation1
Metal bindingi27Magnesium or manganese 2UniRule annotation1
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes the interaction between a single amino acid and another chemical entity. Priority is given to the annotation of physiological ligands.<p><a href='/help/binding' target='_top'>More...</a></p>Binding sitei31D-ribulose 5-phosphateUniRule annotation1
<p>This subsection describes interesting single amino acid sites on the sequence that are not defined in any other subsection. This subsection can be displayed in different sections ('Function', 'PTM / Processing', 'Pathology and Biotech') according to its content.<p><a href='/help/site' target='_top'>More...</a></p>Sitei124Essential for DHBP synthase activityUniRule annotation1
Metal bindingi141Magnesium or manganese 2UniRule annotation1
Binding sitei162D-ribulose 5-phosphateUniRule annotation1
Sitei162Essential for DHBP synthase activityUniRule annotation1
Metal bindingi256Zinc; catalyticUniRule annotation1
Metal bindingi267Zinc; catalyticUniRule annotation1
Metal bindingi269Zinc; catalyticUniRule annotation1
Binding sitei272GTPUniRule annotation1
Binding sitei316GTPUniRule annotation1
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section is used for enzymes and indicates the residues directly involved in catalysis.<p><a href='/help/act_site' target='_top'>More...</a></p>Active sitei328Proton acceptor; for GTP cyclohydrolase activityUniRule annotation1
Active sitei330Nucleophile; for GTP cyclohydrolase activityUniRule annotation1
Binding sitei351GTPUniRule annotation1
Binding sitei356GTPUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes a region in the protein which binds nucleotide phosphates. It always involves more than one amino acid and includes all residues involved in nucleotide-binding.<p><a href='/help/np_bind' target='_top'>More...</a></p>Nucleotide bindingi251 – 255GTPUniRule annotation5
Nucleotide bindingi294 – 296GTPUniRule annotation3

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

Complete GO annotation on QuickGO ...

GO - Biological processi

Complete GO annotation on QuickGO ...

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionHydrolase, Lyase, Multifunctional enzyme
Biological processRiboflavin biosynthesis
LigandGTP-binding, Magnesium, Manganese, Metal-binding, Nucleotide-binding, Zinc

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...BioCyci		BSUB:BSU23260-MONOMER

UniPathway: a resource for the exploration and annotation of metabolic pathways

More...UniPathwayi		UPA00275;UER00399
UPA00275;UER00400

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Riboflavin biosynthesis protein RibBAUniRule annotation
Including the following 2 domains:
3,4-dihydroxy-2-butanone 4-phosphate synthaseUniRule annotation (EC:4.1.99.12UniRule annotation)
Short name:
DHBP synthaseUniRule annotation
GTP cyclohydrolase-2UniRule annotation (EC:3.5.4.25UniRule annotation)
Alternative name(s):
GTP cyclohydrolase IIUniRule annotation
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:ribBAUniRule annotation
Synonyms:ribA
Ordered Locus Names:BSU23260
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiBacillus subtilis (strain 168)
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri224308 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiBacteria › Firmicutes › Bacilli › Bacillales › Bacillaceae › Bacillus ›
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000001570 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">proteome</a> can consist of several components.<br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

GO - Cellular componenti

Complete GO annotation on QuickGO ...

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00001517211 – 398Riboflavin biosynthesis protein RibBAAdd BLAST398

Proteomic databases

PaxDb, a database of protein abundance averages across all three domains of life

More...PaxDbi		P17620

PRoteomics IDEntifications database

More...PRIDEi		P17620

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

Protein-protein interaction databases

Protein interaction database and analysis system

More...IntActi		P17620, 1 interactor

Molecular INTeraction database

More...MINTi		P17620

STRING: functional protein association networks

More...STRINGi		224308.BSU23260

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...SMRi		P17620

Database of comparative protein structure models

More...ModBasei		Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni1 – 199DHBP synthaseAdd BLAST199
Regioni26 – 27D-ribulose 5-phosphate bindingUniRule annotation2
Regioni138 – 142D-ribulose 5-phosphate bindingUniRule annotation5
Regioni200 – 398GTP cyclohydrolase IIAdd BLAST199

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

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

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		ENOG4105C66 Bacteria
COG0108 LUCA
COG0807 LUCA

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		P17620

KEGG Orthology (KO)

More...KOi		K14652

Identification of Orthologs from Complete Genome Data

More...OMAi		LRCDCRM

Database for complete collections of gene phylogenies

More...PhylomeDBi		P17620

Family and domain databases

Conserved Domains Database

More...CDDi		cd00641 GTP_cyclohydro2, 1 hit

Gene3D Structural and Functional Annotation of Protein Families

More...Gene3Di		3.40.50.10990, 1 hit

HAMAP database of protein families

More...HAMAPi		MF_00179 RibA, 1 hit
MF_00180 RibB, 1 hit
MF_01283 RibBA, 1 hit

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR017945 DHBP_synth_RibB-like_a/b_dom
IPR000422 DHBP_synthase_RibB
IPR032677 GTP_cyclohydro_II
IPR000926 RibA
IPR036144 RibA-like_sf
IPR016299 Riboflavin_synth_RibBA

Pfam protein domain database

More...Pfami		View protein in Pfam
PF00926 DHBP_synthase, 1 hit
PF00925 GTP_cyclohydro2, 1 hit

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF142695 SSF142695, 1 hit
SSF55821 SSF55821, 1 hit

TIGRFAMs; a protein family database

More...TIGRFAMsi		TIGR00505 ribA, 1 hit
TIGR00506 ribB, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence%5Flength">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

P17620-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MFHPIEEALD ALKKGEVIIV VDDEDRENEG DFVALAEHAT PEVINFMATH 
        60         70         80         90        100
GRGLICTPLS EEIADRLDLH PMVEHNTDSH HTAFTVSIDH RETKTGISAQ 
       110        120        130        140        150
ERSFTVQALL DSKSVPSDFQ RPGHIFPLIA KKGGVLKRAG HTEAAVDLAE 
       160        170        180        190        200
ACGSPGAGVI CEIMNEDGTM ARVPELIEIA KKHQLKMITI KDLIQYRYNL 
       210        220        230        240        250
TTLVEREVDI TLPTDFGTFK VYGYTNEVDG KEHVAFVMGD VPFGEEPVLV 
       260        270        280        290        300
RVHSECLTGD VFGSHRCDCG PQLHAALNQI AAEGRGVLLY LRQEGRGIGL 
       310        320        330        340        350
INKLKAYKLQ EQGYDTVEAN EALGFLPDLR NYGIGAQILR DLGVRNMKLL 
       360        370        380        390 
TNNPRKIAGL EGYGLSISER VPLQMEAKEH NKKYLQTKMN KLGHLLHF
Length:398
Mass (Da):44,121
Last modified:August 1, 1990 - v1
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:iD9162EA7DAE611AA
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...EMBLi

GenBank nucleotide sequence database

More...GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...DDBJi
Links Updated
L09228 Genomic DNA Translation: AAA67483.1
X51510 Genomic DNA Translation: CAA35880.1
AL009126 Genomic DNA Translation: CAB14258.1

Protein sequence database of the Protein Information Resource

More...PIRi		S45545

NCBI Reference Sequences

More...RefSeqi		NP_390207.1, NC_000964.3
WP_004398484.1, NZ_JNCM01000036.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...EnsemblBacteriai		CAB14258; CAB14258; BSU23260

Database of genes from NCBI RefSeq genomes

More...GeneIDi		938946

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		bsu:BSU23260

Pathosystems Resource Integration Center (PATRIC)

More...PATRICi		fig|224308.179.peg.2533

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L09228 Genomic DNA Translation: AAA67483.1
X51510 Genomic DNA Translation: CAA35880.1
AL009126 Genomic DNA Translation: CAB14258.1
PIRiS45545
RefSeqiNP_390207.1, NC_000964.3
WP_004398484.1, NZ_JNCM01000036.1

3D structure databases

SMRiP17620
ModBaseiSearch...

Protein-protein interaction databases

IntActiP17620, 1 interactor
MINTiP17620
STRINGi224308.BSU23260

Proteomic databases

PaxDbiP17620
PRIDEiP17620

Genome annotation databases

EnsemblBacteriaiCAB14258; CAB14258; BSU23260
GeneIDi938946
KEGGibsu:BSU23260
PATRICifig|224308.179.peg.2533

Phylogenomic databases

eggNOGiENOG4105C66 Bacteria
COG0108 LUCA
COG0807 LUCA
InParanoidiP17620
KOiK14652
OMAiLRCDCRM
PhylomeDBiP17620

Enzyme and pathway databases

UniPathwayiUPA00275;UER00399
UPA00275;UER00400
BioCyciBSUB:BSU23260-MONOMER

Family and domain databases

CDDicd00641 GTP_cyclohydro2, 1 hit
Gene3Di3.40.50.10990, 1 hit
HAMAPiMF_00179 RibA, 1 hit
MF_00180 RibB, 1 hit
MF_01283 RibBA, 1 hit
InterProiView protein in InterPro
IPR017945 DHBP_synth_RibB-like_a/b_dom
IPR000422 DHBP_synthase_RibB
IPR032677 GTP_cyclohydro_II
IPR000926 RibA
IPR036144 RibA-like_sf
IPR016299 Riboflavin_synth_RibBA
PfamiView protein in Pfam
PF00926 DHBP_synthase, 1 hit
PF00925 GTP_cyclohydro2, 1 hit
SUPFAMiSSF142695 SSF142695, 1 hit
SSF55821 SSF55821, 1 hit
TIGRFAMsiTIGR00505 ribA, 1 hit
TIGR00506 ribB, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...ProtoNeti		Search...

MobiDB: a database of protein disorder and mobility annotations

More...MobiDBi		Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiRIBBA_BACSU
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: P17620
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: August 1, 1990
Last sequence update: August 1, 1990
Last modified: February 26, 2020
This is version 147 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families
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