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UniProtKB - Q12362 (RIB2_YEAST)

Entry version 170 (23 Feb 2022)
Sequence version 1 (01 Nov 1997)
Previous versions | rss
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Protein

Bifunctional protein RIB2

Gene

RIB2

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
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>-Experimental evidence at protein leveli <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

Responsible for synthesis of pseudouridine from uracil-32 in cytoplasmic transfer RNAs.

Involved in riboflavin biosynthesis. Converts 2,5-diamino-6-(ribosylamino)-4(3H)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1H,3H)-pyrimidinedione 5'-phosphate.

Miscellaneous

Present with 1540 molecules/cell in log phase SD medium.1 Publication

<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

Zn2+By similarityNote: Binds 1 zinc ion.By similarity

<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 2 of the subpathway that synthesizes 5-amino-6-(D-ribitylamino)uracil from GTP. 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 is used for enzymes and indicates the residues directly involved in catalysis.<p><a href='/help/act_site' target='_top'>More...</a></p>Active sitei211By similarity1
<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 bindingi482Zinc; catalyticBy similarity1
Active sitei484Proton donorBy similarity1
Metal bindingi515Zinc; catalyticBy similarity1
Metal bindingi525Zinc; catalyticBy similarity1

<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, Isomerase, RNA-binding
Biological processRiboflavin biosynthesis, tRNA processing
LigandMetal-binding, Zinc

Enzyme and pathway databases

BRENDA Comprehensive Enzyme Information System

More...BRENDAi		5.4.99.28, 984

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

More...UniPathwayi		UPA00275;UER00401

<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:
Bifunctional protein RIB2
Including the following 2 domains:
tRNA pseudouridine(32) synthase, cytoplasmic (EC:5.4.99.28)
Alternative name(s):
tRNA pseudouridine synthase 8
tRNA pseudouridylate synthase 8
tRNA-uridine isomerase 8
Diaminohydroxyphosphoribosylaminopyrimidine deaminase (EC:3.5.4.26)
Short name:
DRAP deaminase
Alternative name(s):
Riboflavin-specific deaminase
<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:RIB2
Synonyms:PUS8
Ordered Locus Names:YOL066C
<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>OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
<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 identifieri559292 [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 lineageiEukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces ›
<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
  • UP000002311 <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 XV

Organism-specific databases

Saccharomyces Genome Database

More...SGDi		S000005427, RIB2

Eukaryotic Pathogen, Vector and Host Database Resources

More...VEuPathDBi		FungiDB:YOL066C

<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

Keywords - Cellular componenti

Cytoplasm

<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 or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00001627251 – 591Bifunctional protein RIB2Add BLAST591

Proteomic databases

MaxQB - The MaxQuant DataBase

More...MaxQBi		Q12362

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

More...PaxDbi		Q12362

PRoteomics IDEntifications database

More...PRIDEi		Q12362

<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

The Biological General Repository for Interaction Datasets (BioGRID)

More...BioGRIDi		34335, 175 interactors

Database of interacting proteins

More...DIPi		DIP-3840N

STRING: functional protein association networks

More...STRINGi		4932.YOL066C

Miscellaneous databases

RNAct, Protein-RNA interaction predictions for model organisms.

More...RNActi		Q12362, protein

<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		Q12362

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

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family%5Fand%5Fdomains%5Fsection">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini99 – 168S4 RNA-bindingPROSITE-ProRule annotationAdd BLAST70
Domaini433 – 552CMP/dCMP-type deaminasePROSITE-ProRule annotationAdd BLAST120

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 – 432tRNA pseudouridine synthaseAdd BLAST432
Regioni433 – 591DRAP deaminaseAdd BLAST159

<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 pseudouridine synthase RluA family.Curated
In the C-terminal section; belongs to the cytidine and deoxycytidylate deaminase family.Curated

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		KOG1018, Eukaryota
KOG1919, Eukaryota

Ensembl GeneTree

More...GeneTreei		ENSGT00420000029802

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...HOGENOMi		CLU_016902_12_4_1

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		Q12362

Identification of Orthologs from Complete Genome Data

More...OMAi		RYNTITK

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR002125, CMP_dCMP_dom
IPR016193, Cytidine_deaminase-like
IPR020103, PsdUridine_synth_cat_dom_sf
IPR006225, PsdUridine_synth_RluC/D
IPR006224, PsdUridine_synth_RluC/D_CS
IPR006145, PsdUridine_synth_RsuA/RluA

Pfam protein domain database

More...Pfami		View protein in Pfam
PF00849, PseudoU_synth_2, 1 hit

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF53927, SSF53927, 1 hit
SSF55120, SSF55120, 1 hit

TIGRFAMs; a protein family database

More...TIGRFAMsi		TIGR00005, rluA_subfam, 1 hit

PROSITE; a protein domain and family database

More...PROSITEi		View protein in PROSITE
PS51747, CYT_DCMP_DEAMINASES_2, 1 hit
PS01129, PSI_RLU, 1 hit
PS50889, S4, 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.

Q12362-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MEDSNNEASD DFNNLLNKEI ESAKEVKLRK FANRNNNRNE NSSKVKDASG 
        60         70         80         90        100
FRLRVIQTDG HKTKKTDPDY EVTIDGPLRK IEPYFFTYKT FCKERWRDRK 
       110        120        130        140        150
LVDVFVSEFR DREPSYYSKT IAEGKVYLND EPANLDTIIR DGDLITHKVH 
       160        170        180        190        200
RHEPPVTSKP IDIVFEDEDI LVIDKPSSIP VHPTGRYRFN TITKMLERQL 
       210        220        230        240        250
GYSVHPCNRL DKPTSGLMFL AKTPLGADRM GDQMKAREVT KEYVARVKGE 
       260        270        280        290        300
FPIGIVEVDK PVRSVNPKVA LNAVCEMSDE NAKHAKTVFQ RVSYDGQTSI 
       310        320        330        340        350
VKCKPLTGRT HQIRVHLQYL GFPIANDPIY SNPDIWGPDL GRGGLQNYDD 
       360        370        380        390        400
IVLKLDAIGK TNPAESWIHP HSEGEYLLGR QCEECEAEMY TDPGTNDLDL 
       410        420        430        440        450
WLHAFRYESL ERNSDTQKPL WSYRTKYPEW ALEPHRRYME MAVKEAGKCG 
       460        470        480        490        500
PTKTAFSVGA VLVHGTQVLA TGYSRELPGN THAEQCALIK YSQLHPNCPT 
       510        520        530        540        550
IVPMGTVLYT TMEPCSFRLS GNEPCCDRIL ATQGAIGTVF VGVMEPDTFV 
       560        570        580        590 
KNNTSLNKLE SHGVNYIQIP GYEEECTIIA FKGHDNSDDK A
Length:591
Mass (Da):67,036
Last modified:November 1, 1997 - 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:i5C625500C997ED83
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
Z21618 Genomic DNA Translation: CAA79742.1
Z74808 Genomic DNA Translation: CAA99076.1
BK006948 Genomic DNA Translation: DAA10717.1

Protein sequence database of the Protein Information Resource

More...PIRi		S50972

NCBI Reference Sequences

More...RefSeqi		NP_014575.1, NM_001183321.1

Genome annotation databases

Ensembl fungal genome annotation project

More...EnsemblFungii		YOL066C_mRNA; YOL066C; YOL066C

Database of genes from NCBI RefSeq genomes

More...GeneIDi		854088

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		sce:YOL066C

<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
Z21618 Genomic DNA Translation: CAA79742.1
Z74808 Genomic DNA Translation: CAA99076.1
BK006948 Genomic DNA Translation: DAA10717.1
PIRiS50972
RefSeqiNP_014575.1, NM_001183321.1

3D structure databases

SMRiQ12362
ModBaseiSearch...

Protein-protein interaction databases

BioGRIDi34335, 175 interactors
DIPiDIP-3840N
STRINGi4932.YOL066C

Proteomic databases

MaxQBiQ12362
PaxDbiQ12362
PRIDEiQ12362

Genome annotation databases

EnsemblFungiiYOL066C_mRNA; YOL066C; YOL066C
GeneIDi854088
KEGGisce:YOL066C

Organism-specific databases

SGDiS000005427, RIB2
VEuPathDBiFungiDB:YOL066C

Phylogenomic databases

eggNOGiKOG1018, Eukaryota
KOG1919, Eukaryota
GeneTreeiENSGT00420000029802
HOGENOMiCLU_016902_12_4_1
InParanoidiQ12362
OMAiRYNTITK

Enzyme and pathway databases

UniPathwayiUPA00275;UER00401
BRENDAi5.4.99.28, 984

Miscellaneous databases

Protein Ontology

More...PROi		PR:Q12362
RNActiQ12362, protein

Family and domain databases

InterProiView protein in InterPro
IPR002125, CMP_dCMP_dom
IPR016193, Cytidine_deaminase-like
IPR020103, PsdUridine_synth_cat_dom_sf
IPR006225, PsdUridine_synth_RluC/D
IPR006224, PsdUridine_synth_RluC/D_CS
IPR006145, PsdUridine_synth_RsuA/RluA
PfamiView protein in Pfam
PF00849, PseudoU_synth_2, 1 hit
SUPFAMiSSF53927, SSF53927, 1 hit
SSF55120, SSF55120, 1 hit
TIGRFAMsiTIGR00005, rluA_subfam, 1 hit
PROSITEiView protein in PROSITE
PS51747, CYT_DCMP_DEAMINASES_2, 1 hit
PS01129, PSI_RLU, 1 hit
PS50889, S4, 1 hit

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 nameiRIB2_YEAST
<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: Q12362
Secondary accession number(s): D6W201
<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: November 1, 1997
Last sequence update: November 1, 1997
Last modified: February 23, 2022
This is version 170 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 programFungal 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. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  2. Yeast chromosome XV
    Yeast (Saccharomyces cerevisiae) chromosome XV: entries and gene names
  3. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  4. SIMILARITY comments
    Index of protein domains and families
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