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Entry version 112 (07 Apr 2021)
Sequence version 1 (01 Jan 1998)
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Protein

23S rRNA (uracil-C(5))-methyltransferase RlmCD

Gene

rlmCD

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

Annotation score:4 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

Catalyzes the formation of 5-methyl-uridine at positions 747 (m5U747) and 1939 (m5U1939) in 23S rRNA.

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

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 bindingi77Iron-sulfur (4Fe-4S)By similarity1
Metal bindingi83Iron-sulfur (4Fe-4S)By similarity1
Metal bindingi86Iron-sulfur (4Fe-4S)By similarity1
Metal bindingi166Iron-sulfur (4Fe-4S)By similarity1
<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 sitei290S-adenosyl-L-methioninePROSITE-ProRule annotation1
Binding sitei319S-adenosyl-L-methionine; via carbonyl oxygenPROSITE-ProRule annotation1
Binding sitei340S-adenosyl-L-methioninePROSITE-ProRule annotation1
Binding sitei388S-adenosyl-L-methioninePROSITE-ProRule 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 sitei415NucleophilePROSITE-ProRule 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

GO - Biological processi

<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 functionMethyltransferase, Transferase
Biological processrRNA processing
Ligand4Fe-4S, Iron, Iron-sulfur, Metal-binding, S-adenosyl-L-methionine

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...
BioCyci
BSUB:BSU06730-MONOMER

BRENDA Comprehensive Enzyme Information System

More...
BRENDAi
2.1.1.189, 658

<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:
23S rRNA (uracil-C(5))-methyltransferase RlmCD (EC:2.1.1.189, EC:2.1.1.190)
Alternative name(s):
23S rRNA (uracil(1939)-C(5))-methyltransferase
23S rRNA (uracil(747)-C(5))-methyltransferase
<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:rlmCD
Synonyms:yefA, yerS
Ordered Locus Names:BSU06730
<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 lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeBacillus
<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 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_00001619531 – 45923S rRNA (uracil-C(5))-methyltransferase RlmCDAdd BLAST459

Proteomic databases

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

More...
PaxDbi
O31503

PRoteomics IDEntifications database

More...
PRIDEi
O31503

<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
224308.BSU06730

<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

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SMRi
O31503

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>Domaini6 – 64TRAMPROSITE-ProRule annotationAdd BLAST59

<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 class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family.PROSITE-ProRule annotation

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
COG2265, Bacteria

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
O31503

Identification of Orthologs from Complete Genome Data

More...
OMAi
FYAGDMK

Database for complete collections of gene phylogenies

More...
PhylomeDBi
O31503

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR030390, MeTrfase_TrmA_AS
IPR030391, MeTrfase_TrmA_CS
IPR012340, NA-bd_OB-fold
IPR029063, SAM-dependent_MTases
IPR002792, TRAM_dom
IPR010280, U5_MeTrfase_fam

The PANTHER Classification System

More...
PANTHERi
PTHR11061, PTHR11061, 1 hit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF01938, TRAM, 1 hit
PF05958, tRNA_U5-meth_tr, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF50249, SSF50249, 1 hit
SSF53335, SSF53335, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS51687, SAM_MT_RNA_M5U, 1 hit
PS50926, TRAM, 1 hit
PS01230, TRMA_1, 1 hit
PS01231, TRMA_2, 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.

O31503-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MKMKPPVEKN EYYDVTFEDL THEGAGVAKV QGFPIFVPNA LPEEKAQIKV
60 70 80 90 100
TRVKKGFAFG RLIELKEESP HRTDAPCPIY KQCGGCQLQH MTYEGQLLFK
110 120 130 140 150
QKQVKDVLER IGKLDLSKVT VHPTLGMEDP WNYRNKAQVP VGEREGGLVA
160 170 180 190 200
GFYQQRSHDI IDMSACLIQQ SKNDEAVQAV KDICANYGVK AYNEERHKGW
210 220 230 240 250
LRHIMVRYGV VTGEMMIVFI TRTSDFPHKA KIIEDITAQF PHVKSIVQNI
260 270 280 290 300
NPNKTNVIFG NETNVIWGEE YIYDLIGDVK FAISARSFYQ VNPEQTKVLY
310 320 330 340 350
DKALEYAELQ GEETVIDAYC GIGTISLFLA KQAKKVYGVE IVPEAIEDAK
360 370 380 390 400
RNAELNGNTN AEFAVGEAET VIPKWYEEGI TADTLVVDPP RKGCDEALLR
410 420 430 440 450
TIVEMKPKRV VYVSCNPGTL ARDLRVLEDG GYVTREVQPV DMFPHTNHVE

CCVLIKLKE
Length:459
Mass (Da):51,819
Last modified:January 1, 1998 - 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:i35E99547779421D5
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

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EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

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DDBJi
Links Updated
AL009126 Genomic DNA Translation: CAB12493.1

Protein sequence database of the Protein Information Resource

More...
PIRi
E69793

NCBI Reference Sequences

More...
RefSeqi
NP_388555.1, NC_000964.3
WP_003233892.1, NZ_JNCM01000032.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
CAB12493; CAB12493; BSU_06730

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
936060

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
bsu:BSU06730

Pathosystems Resource Integration Center (PATRIC)

More...
PATRICi
fig|224308.179.peg.731

<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
AL009126 Genomic DNA Translation: CAB12493.1
PIRiE69793
RefSeqiNP_388555.1, NC_000964.3
WP_003233892.1, NZ_JNCM01000032.1

3D structure databases

SMRiO31503
ModBaseiSearch...

Protein-protein interaction databases

STRINGi224308.BSU06730

Proteomic databases

PaxDbiO31503
PRIDEiO31503

Genome annotation databases

EnsemblBacteriaiCAB12493; CAB12493; BSU_06730
GeneIDi936060
KEGGibsu:BSU06730
PATRICifig|224308.179.peg.731

Phylogenomic databases

eggNOGiCOG2265, Bacteria
InParanoidiO31503
OMAiFYAGDMK
PhylomeDBiO31503

Enzyme and pathway databases

BioCyciBSUB:BSU06730-MONOMER
BRENDAi2.1.1.189, 658

Family and domain databases

InterProiView protein in InterPro
IPR030390, MeTrfase_TrmA_AS
IPR030391, MeTrfase_TrmA_CS
IPR012340, NA-bd_OB-fold
IPR029063, SAM-dependent_MTases
IPR002792, TRAM_dom
IPR010280, U5_MeTrfase_fam
PANTHERiPTHR11061, PTHR11061, 1 hit
PfamiView protein in Pfam
PF01938, TRAM, 1 hit
PF05958, tRNA_U5-meth_tr, 1 hit
SUPFAMiSSF50249, SSF50249, 1 hit
SSF53335, SSF53335, 1 hit
PROSITEiView protein in PROSITE
PS51687, SAM_MT_RNA_M5U, 1 hit
PS50926, TRAM, 1 hit
PS01230, TRMA_1, 1 hit
PS01231, TRMA_2, 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 nameiRLMCD_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: O31503
<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: July 19, 2004
Last sequence update: January 1, 1998
Last modified: April 7, 2021
This is version 112 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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