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Entry version 107 (13 Nov 2019)
Sequence version 1 (07 Jun 2005)
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Protein

Ribosome maturation factor RimM

Gene

rimM

Organism
Escherichia coli (strain K12)
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

One of at least 4 proteins (Era, RbfA, RimM and RsgA/YjeQ) that assist in the late assembly stage of the 30S ribosomal subunit. An accessory protein needed during the final step in assembly of the 30S ribosomal subunit, for assembly of the head region (the 16S rRNA 3' domain) (PubMed:11514519, PubMed:15496525, PubMed:20188109, PubMed:23611982, PubMed:27382067). It may act while Era is associated and before RimP in 30S subunit assembly (PubMed:20188109). Interacts with S19 (PubMed:15496525). Essential for efficient processing of 16S rRNA; a deletion mutant accumulates 17S rRNA (PubMed:9422595). Deletions also do not assemble the head-associated ribosomal proteins correctly (PubMed:23611982, PubMed:27382067). May be needed both before and after RbfA during the maturation of 16S rRNA. It has affinity for free ribosomal 30S subunits but not for 70S ribosomes (PubMed:9226267).7 Publications

<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 functionChaperone, RNA-binding, rRNA-binding
Biological processRibosome biogenesis

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...
BioCyci
EcoCyc:EG11153-MONOMER
ECOL316407:JW5413-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_and_taxonomy_section">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:
Ribosome maturation factor RimM
Alternative name(s):
21K1 Publication
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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:rimM
Synonyms:yfjA1 Publication
Ordered Locus Names:b2608, JW5413
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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>OrganismiEscherichia coli (strain K12)
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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 identifieri83333 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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 lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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
  • UP000000318 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">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
  • UP000000625 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

Keywords - Cellular componenti

Cytoplasm

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

<p>This subsection of the ‘Pathology and Biotech’ section describes the in vivo effects caused by ablation of the gene (or one or more transcripts) coding for the protein described in the entry. This includes gene knockout and knockdown, provided experiments have been performed in the context of a whole organism or a specific tissue, and not at the single-cell level.<p><a href='/help/disruption_phenotype' target='_top'>More...</a></p>Disruption phenotypei

Disruption causes slow growth, incomplete processing of 17S rRNA, accumulation of 30S and 50S subunits and decreased translational efficiency (PubMed:9226267, PubMed:23611982). Altered levels of ribosomal proteins in 30S subunits; S2, S3, S14 and S21 severely depleted, S5, S7 and S11 are decreased, distortion of rRNA hleix 44 near the decoding center (PubMed:23611982). Slightly different results show ribosomal proteins S2 and S21 not found in 30S subunits, decreased S3, S13 and S14 in 30S subunits (PubMed:27382067). Deletion is partially suppressed by mutations in rpsM, the gene for ribosomal protein S13 (PubMed:9226267, PubMed:15496525), by a mutation in rpsS, the gene for S19 (PubMed:15496525) and also by increased expression of RbfA (PubMed:9422595). Suppressors due to in-frame fusions with rpsP, the upstream gene for ribosomal protein S16 have been isolated (PubMed:11514519). Suppression is probably due to increased expression of RimM; the fusion proteins are found in translationally active 70S ribosomes (PubMed:11514519).5 Publications

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/manual/pathology_and_biotech_section">'Pathology and Biotech'</a> section describes the effect of the experimental mutation of one or more amino acid(s) on the biological properties of the protein.<p><a href='/help/mutagen' target='_top'>More...</a></p>Mutagenesisi106 – 107YY → AA: 3-fold decreased growth rate; loss of association with 30S ribosomal subunit; loss of interaction with S19. 1 Publication2

<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_00001632861 – 182Ribosome maturation factor RimMAdd BLAST182

Proteomic databases

Encyclopedia of Proteome Dynamics

More...
EPDi
P0A7X6

jPOST - Japan Proteome Standard Repository/Database

More...
jPOSTi
P0A7X6

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

More...
PaxDbi
P0A7X6

PRoteomics IDEntifications database

More...
PRIDEi
P0A7X6

2D gel databases

Two-dimensional polyacrylamide gel electrophoresis database from the Geneva University Hospital

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SWISS-2DPAGEi
P0A7X6

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

<p>This subsection of the ‘Expression’ section reports the experimentally proven effects of inducers and repressors (usually chemical compounds or environmental factors) on the level of protein (or mRNA) expression (up-regulation, down-regulation, constitutive expression).<p><a href='/help/induction' target='_top'>More...</a></p>Inductioni

Translation of the mRNA is repressed by a stem-loop in the first 150 nucleotides of its own transcript (PubMed:1569581). Part of the rpsP-rimM-trmD-rplS operon (PubMed:6357787, PubMed:1569581).2 Publications

<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

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction_section">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function_section">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Binds 30S ribosomal subunit but not 70S ribosomes (PubMed:9226267). Binds ribosomal protein S19 and probably 16S rRNA (PubMed:15496525).

2 Publications

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGrid)

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BioGridi
4263071, 78 interactors
851436, 6 interactors

Protein interaction database and analysis system

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IntActi
P0A7X6, 7 interactors

STRING: functional protein association networks

More...
STRINGi
511145.b2608

<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
P0A7X6

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_and_domains_section">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>Domaini103 – 182PRC barrelAdd BLAST80

<p>This subsection of the ‘Family and domains’ section provides general information on the biological role of a domain. The term ‘domain’ is intended here in its wide acceptation, it may be a structural domain, a transmembrane region or a functional domain. Several domains are described in this subsection.<p><a href='/help/domain_cc' target='_top'>More...</a></p>Domaini

The PRC barrel domain binds ribosomal protein S19.1 Publication

<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 RimM family.Curated

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
ENOG4108ZR6 Bacteria
COG0806 LUCA

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
HOG000220989

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
P0A7X6

KEGG Orthology (KO)

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KOi
K02860

Database for complete collections of gene phylogenies

More...
PhylomeDBi
P0A7X6

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

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Gene3Di
2.40.30.60, 1 hit

HAMAP database of protein families

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HAMAPi
MF_00014 Ribosome_mat_RimM, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR011961 16S_RimM
IPR027275 PRC-brl_dom
IPR011033 PRC_barrel-like_sf
IPR002676 RimM_N
IPR036976 RimM_N_sf
IPR009000 Transl_B-barrel_sf

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF05239 PRC, 1 hit
PF01782 RimM, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF50346 SSF50346, 1 hit
SSF50447 SSF50447, 1 hit

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR02273 16S_RimM, 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_length">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_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">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.

P0A7X6-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSKQLTAQAP VDPIVLGKMG SSYGIRGWLR VFSSTEDAES IFDYQPWFIQ
60 70 80 90 100
KAGQWQQVQL ESWKHHNQDM IIKLKGVDDR DAANLLTNCE IVVDSSQLPQ
110 120 130 140 150
LEEGDYYWKD LMGCQVVTTE GYDLGKVVDM METGSNDVLV IKANLKDAFG
160 170 180
IKERLVPFLD GQVIKKVDLT TRSIEVDWDP GF
Length:182
Mass (Da):20,605
Last modified:June 7, 2005 - 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:iD8512AB9E4FD3D75
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

More...
DDBJi
Links Updated
X01818 Genomic DNA No translation available.
U00096 Genomic DNA Translation: AAC75657.2
AP009048 Genomic DNA Translation: BAA16493.2

Protein sequence database of the Protein Information Resource

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PIRi
C65039

NCBI Reference Sequences

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RefSeqi
NP_417099.4, NC_000913.3
WP_000043335.1, NZ_STEB01000040.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
AAC75657; AAC75657; b2608
BAA16493; BAA16493; BAA16493

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
947101

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
ecj:JW5413
eco:b2608

Pathosystems Resource Integration Center (PATRIC)

More...
PATRICi
fig|1411691.4.peg.4131

<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
X01818 Genomic DNA No translation available.
U00096 Genomic DNA Translation: AAC75657.2
AP009048 Genomic DNA Translation: BAA16493.2
PIRiC65039
RefSeqiNP_417099.4, NC_000913.3
WP_000043335.1, NZ_STEB01000040.1

3D structure databases

SMRiP0A7X6
ModBaseiSearch...

Protein-protein interaction databases

BioGridi4263071, 78 interactors
851436, 6 interactors
IntActiP0A7X6, 7 interactors
STRINGi511145.b2608

2D gel databases

SWISS-2DPAGEiP0A7X6

Proteomic databases

EPDiP0A7X6
jPOSTiP0A7X6
PaxDbiP0A7X6
PRIDEiP0A7X6

Genome annotation databases

EnsemblBacteriaiAAC75657; AAC75657; b2608
BAA16493; BAA16493; BAA16493
GeneIDi947101
KEGGiecj:JW5413
eco:b2608
PATRICifig|1411691.4.peg.4131

Organism-specific databases

EchoBASE - an integrated post-genomic database for E. coli

More...
EchoBASEi
EB1142

Phylogenomic databases

eggNOGiENOG4108ZR6 Bacteria
COG0806 LUCA
HOGENOMiHOG000220989
InParanoidiP0A7X6
KOiK02860
PhylomeDBiP0A7X6

Enzyme and pathway databases

BioCyciEcoCyc:EG11153-MONOMER
ECOL316407:JW5413-MONOMER

Miscellaneous databases

Protein Ontology

More...
PROi
PR:P0A7X6

Family and domain databases

Gene3Di2.40.30.60, 1 hit
HAMAPiMF_00014 Ribosome_mat_RimM, 1 hit
InterProiView protein in InterPro
IPR011961 16S_RimM
IPR027275 PRC-brl_dom
IPR011033 PRC_barrel-like_sf
IPR002676 RimM_N
IPR036976 RimM_N_sf
IPR009000 Transl_B-barrel_sf
PfamiView protein in Pfam
PF05239 PRC, 1 hit
PF01782 RimM, 1 hit
SUPFAMiSSF50346 SSF50346, 1 hit
SSF50447 SSF50447, 1 hit
TIGRFAMsiTIGR02273 16S_RimM, 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 nameiRIMM_ECOLI
<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: P0A7X6
Secondary accession number(s): P21504, Q8X9D2
<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_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 7, 2005
Last sequence update: June 7, 2005
Last modified: November 13, 2019
This is version 107 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

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
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