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UniProtKB - Q726F7 (RIMO_DESVH)

Entry version 113 (02 Dec 2020)
Sequence version 1 (05 Jul 2004)
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Protein

Ribosomal protein S12 methylthiotransferase RimO

Gene

rimO

Organism
Desulfovibrio vulgaris (strain Hildenborough / ATCC 29579 / DSM 644 / NCIMB 8303)
Status
Reviewed-Annotation score:

Annotation score:3 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 methylthiolation of an aspartic acid residue of ribosomal protein S12.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

[4Fe-4S] clusterUniRule annotationNote: Binds 2 [4Fe-4S] clusters. One cluster is coordinated with 3 cysteines and an exchangeable S-adenosyl-L-methionine.UniRule annotation

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 bindingi11Iron-sulfur (4Fe-4S)UniRule annotation1
Metal bindingi46Iron-sulfur (4Fe-4S)UniRule annotation1
Metal bindingi81Iron-sulfur (4Fe-4S)UniRule annotation1
Metal bindingi145Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation1
Metal bindingi149Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation1
Metal bindingi152Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation1

<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 functionTransferase
Ligand4Fe-4S, Iron, Iron-sulfur, Metal-binding, S-adenosyl-L-methionine

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...BioCyci		DVUL882:G1GT1-3242-MONOMER

<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:
Ribosomal protein S12 methylthiotransferase RimOUniRule annotation (EC:2.8.4.4UniRule annotation)
Short name:
S12 MTTaseUniRule annotation
Short name:
S12 methylthiotransferaseUniRule annotation
Alternative name(s):
Ribosomal protein S12 (aspartate-C(3))-methylthiotransferaseUniRule annotation
Ribosome maturation factor RimOUniRule 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:rimOUniRule annotation
Ordered Locus Names:DVU_3151
<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>OrganismiDesulfovibrio vulgaris (strain Hildenborough / ATCC 29579 / DSM 644 / NCIMB 8303)
<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 identifieri882 [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 › Proteobacteria › Deltaproteobacteria › Desulfovibrionales › Desulfovibrionaceae › Desulfovibrio ›
<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
  • UP000002194 <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

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_00003748081 – 430Ribosomal protein S12 methylthiotransferase RimOAdd BLAST430

Proteomic databases

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

More...PaxDbi		Q726F7

<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

STRING: functional protein association networks

More...STRINGi		882.DVU_3151

<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		Q726F7

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>Domaini2 – 119MTTase N-terminalUniRule annotationAdd BLAST118
Domaini131 – 361Radical SAM corePROSITE-ProRule annotationAdd BLAST231
Domaini364 – 430TRAMUniRule annotationAdd BLAST67

<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

Belongs to the methylthiotransferase family. RimO subfamily.UniRule annotation

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		COG0621, Bacteria

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...HOGENOMi		CLU_018697_0_1_7

Identification of Orthologs from Complete Genome Data

More...OMAi		CLSERYK

Database for complete collections of gene phylogenies

More...PhylomeDBi		Q726F7

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...Gene3Di		3.40.50.12160, 1 hit
3.80.30.20, 1 hit

HAMAP database of protein families

More...HAMAPi		MF_01865, MTTase_RimO, 1 hit

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR006638, Elp3/MiaB/NifB
IPR005839, Methylthiotransferase
IPR020612, Methylthiotransferase_CS
IPR013848, Methylthiotransferase_N
IPR038135, Methylthiotransferase_N_sf
IPR005840, Ribosomal_S12_MeSTrfase_RimO
IPR041582, RimO_TRAM
IPR007197, rSAM
IPR023404, rSAM_horseshoe
IPR002792, TRAM_dom

The PANTHER Classification System

More...PANTHERi		PTHR43837, PTHR43837, 1 hit

Pfam protein domain database

More...Pfami		View protein in Pfam
PF04055, Radical_SAM, 1 hit
PF18693, TRAM_2, 1 hit
PF00919, UPF0004, 1 hit

Structure-Function Linkage Database

More...SFLDi		SFLDG01061, methylthiotransferase, 1 hit
SFLDF00274, ribosomal_protein_S12_methylth, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...SMARTi		View protein in SMART
SM00729, Elp3, 1 hit

TIGRFAMs; a protein family database

More...TIGRFAMsi		TIGR00089, TIGR00089, 1 hit
TIGR01125, TIGR01125, 1 hit

PROSITE; a protein domain and family database

More...PROSITEi		View protein in PROSITE
PS51449, MTTASE_N, 1 hit
PS01278, MTTASE_RADICAL, 1 hit
PS51918, RADICAL_SAM, 1 hit
PS50926, TRAM, 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.

Q726F7-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MISVYSISLG CPKNRVDTEH LLGSLGVAVQ PVEHLSRADV VLINTCGFIL 
        60         70         80         90        100
PAVEESVRTI VETIDDLSGL RKRPLLAVAG CLVGRYGAKE LASELPEVDV 
       110        120        130        140        150
WLPNQDITAW PAMLAHALKL EGAVTPGRLL STGPSYAWLK ISDGCRHNCS 
       160        170        180        190        200
FCTIPSIRGG HRSTPADVLE REARDLVAQG VRELVLVAQD VTAWGEDIGA 
       210        220        230        240        250
PHGLATLLER LLPVPGLARL RLMYLYPAGL TRELLGFMRD AGAPLVPYFD 
       260        270        280        290        300
VPLQHAHPDI LSRMGRPFAR DPRRVVERVR DFFPDAALRT SLIVGFPGET 
       310        320        330        340        350
DEHYAALTSF VEETRFTHMG VFAYRAEEGT PAAEMPEQVE DRVKEWRRDA 
       360        370        380        390        400
LMEVQAEISE ELLAVHEGTR QQVLVDAPHE EWPGLHTGRT WFQAPEIDGI 
       410        420        430
TYVSGPGVEP GALVEADIVE TRTYDLVALA
Length:430
Mass (Da):47,277
Last modified:July 5, 2004 - 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:i2B79704EA870788A
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
AE017285 Genomic DNA Translation: AAS97621.1

NCBI Reference Sequences

More...RefSeqi		WP_010940409.1, NZ_CABHLV010000001.1
YP_012361.1, NC_002937.3

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...EnsemblBacteriai		AAS97621; AAS97621; DVU_3151

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		dvu:DVU3151

Pathosystems Resource Integration Center (PATRIC)

More...PATRICi		fig|882.5.peg.2857

<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
AE017285 Genomic DNA Translation: AAS97621.1
RefSeqiWP_010940409.1, NZ_CABHLV010000001.1
YP_012361.1, NC_002937.3

3D structure databases

SMRiQ726F7
ModBaseiSearch...

Protein-protein interaction databases

STRINGi882.DVU_3151

Proteomic databases

PaxDbiQ726F7

Genome annotation databases

EnsemblBacteriaiAAS97621; AAS97621; DVU_3151
KEGGidvu:DVU3151
PATRICifig|882.5.peg.2857

Phylogenomic databases

eggNOGiCOG0621, Bacteria
HOGENOMiCLU_018697_0_1_7
OMAiCLSERYK
PhylomeDBiQ726F7

Enzyme and pathway databases

BioCyciDVUL882:G1GT1-3242-MONOMER

Family and domain databases

Gene3Di3.40.50.12160, 1 hit
3.80.30.20, 1 hit
HAMAPiMF_01865, MTTase_RimO, 1 hit
InterProiView protein in InterPro
IPR006638, Elp3/MiaB/NifB
IPR005839, Methylthiotransferase
IPR020612, Methylthiotransferase_CS
IPR013848, Methylthiotransferase_N
IPR038135, Methylthiotransferase_N_sf
IPR005840, Ribosomal_S12_MeSTrfase_RimO
IPR041582, RimO_TRAM
IPR007197, rSAM
IPR023404, rSAM_horseshoe
IPR002792, TRAM_dom
PANTHERiPTHR43837, PTHR43837, 1 hit
PfamiView protein in Pfam
PF04055, Radical_SAM, 1 hit
PF18693, TRAM_2, 1 hit
PF00919, UPF0004, 1 hit
SFLDiSFLDG01061, methylthiotransferase, 1 hit
SFLDF00274, ribosomal_protein_S12_methylth, 1 hit
SMARTiView protein in SMART
SM00729, Elp3, 1 hit
TIGRFAMsiTIGR00089, TIGR00089, 1 hit
TIGR01125, TIGR01125, 1 hit
PROSITEiView protein in PROSITE
PS51449, MTTASE_N, 1 hit
PS01278, MTTASE_RADICAL, 1 hit
PS51918, RADICAL_SAM, 1 hit
PS50926, TRAM, 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 nameiRIMO_DESVH
<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: Q726F7
<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: May 26, 2009
Last sequence update: July 5, 2004
Last modified: December 2, 2020
This is version 113 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. SIMILARITY comments
    Index of protein domains and families
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