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UniProtKB - P31667 (RPNA_ECOLI)

Entry version 127 (13 Nov 2019)
Sequence version 1 (01 Jul 1993)
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Protein

Recombination-promoting nuclease RpnA

Gene

rpnA

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

A low activity DNA endonuclease yielding 3'-hydroxyl ends, equally active on ss or dsDNA, not active on dsRNA (PubMed:28096446). Shows no sequence specificity (PubMed:28096446). Upon expression enhances RecA-independent DNA recombination 49-fold, concomitantly reducing viability by 88% and probably inducing DNA damage as measured by induction of the SOS repair response in RecA cells (PubMed:28096446). RecA-independent DNA recombination leads to replacement of recipient genes with large segments of donor DNA rather than DNA addition to the donor strain; increased expression of RpnA leads to smaller replacement segments, suggesting this protein may play a role in generating crossover events (PubMed:28096446).1 Publication

<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

Mg2+1 PublicationNote: Endonuclease activity partially supported by Mn2+.1 Publication

<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section describes regulatory mechanisms for enzymes, transporters or microbial transcription factors, and reports the components which regulate (by activation or inhibition) the reaction.<p><a href='/help/activity_regulation' target='_top'>More...</a></p>Activity regulationi

Inhibited by EDTA, Zn2+ and by Mg2+ plus Mn2+; stimulated by Ca2+ in the presence of Mg2+.1 Publication

<p>This subsection of the ‘Function’ section describes biophysical and chemical properties, such as maximal absorption, kinetic parameters, pH dependence, redox potentials and temperature dependence.<p><a href='/help/biophysicochemical_properties' target='_top'>More...</a></p>pH dependencei

Optimum pH is 9.0, active between pH 7.5 and 10.5.1 Publication

<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 functionEndonuclease, Hydrolase, Nuclease
Biological processDNA recombination
LigandMagnesium

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...BioCyci		EcoCyc:EG11750-MONOMER
ECOL316407:JW3374-MONOMER
MetaCyc:EG11750-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:
Recombination-promoting nuclease RpnA1 Publication (EC:3.1.21.-1 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:rpnA1 Publication
Synonyms:yhgA
Ordered Locus Names:b3411, JW3374
<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 lineageiBacteria › Proteobacteria › Gammaproteobacteria › Enterobacterales › Enterobacteriaceae › Escherichia ›
<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 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

Cells grow to slightly higher density than wild-type in sublethal levels of streptomycin (PubMed:25316676). A quadruple rpnA-rpnB-rpnC-rpnD deletion shows no change in basal RecA-independent recombination (PubMed:28096446).2 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>Mutagenesisi11D → A: No longer increases recombination efficiency, toxicity or SOS response. 1 Publication1
Mutagenesisi63D → A: No longer increases recombination efficiency, toxicity or SOS response. No nuclease activity. 1 Publication1
Mutagenesisi82E → A: No longer increases recombination efficiency, toxicity or SOS response. 1 Publication1
Mutagenesisi84Q → A: No longer increases recombination efficiency or SOS response, more toxic than wild-type. 1 Publication1
Mutagenesisi84Q → K: No longer increases recombination efficiency, toxicity or SOS response. 1 Publication1
Mutagenesisi94R → A: No longer increases recombination efficiency or SOS response, more toxic than wild-type. 1 Publication1
Mutagenesisi165D → A: Hyperactive mutant, increases recombination efficiency, more toxic than wild-type. Increased nuclease activity. 1 Publication1

<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_00001695441 – 292Recombination-promoting nuclease RpnAAdd BLAST292

Proteomic databases

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

More...PaxDbi		P31667

PRoteomics IDEntifications database

More...PRIDEi		P31667

<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		4263493, 9 interactors

Database of interacting proteins

More...DIPi		DIP-12335N

Protein interaction database and analysis system

More...IntActi		P31667, 1 interactor

STRING: functional protein association networks

More...STRINGi		511145.b3411

<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

<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 Rpn/YhgA-like nuclease family.Curated

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		ENOG4105DNE Bacteria
COG5464 LUCA

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...HOGENOMi		HOG000116866

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		P31667

Database for complete collections of gene phylogenies

More...PhylomeDBi		P31667

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR010106 RpnA
IPR006842 Transposase_31

Pfam protein domain database

More...Pfami		View protein in Pfam
PF04754 Transposase_31, 1 hit

TIGRFAMs; a protein family database

More...TIGRFAMsi		TIGR01784 T_den_put_tspse, 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.

P31667-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSKKQSSTPH DALFKLFLRQ PDTARDFLAF HLPAPIHALC DMKTLKLESS 
        60         70         80         90        100
SFIDDDLRES YSDVLWSVKT EQGPGYIYCL IEHQSTSNKL IAFRMMRYAI 
       110        120        130        140        150
AAMQNHLDAG YKTLPMVVPL LFYHGIESPY PYSLCWLDCF ADPKLARQLY 
       160        170        180        190        200
ASAFPLIDVT VMPDDEIMQH RRMALLELIQ KHIRQRDLMG LVEQMACLLS 
       210        220        230        240        250
SGYANDRQIK GLFNYILQTG DAVRFNDFID GVAERSPKHK ESLMTIAERL 
       260        270        280        290 
RQEGEQSKAL HIAKIMLESG VPLADIMRFT GLSEEELAAA SQ
Length:292
Mass (Da):33,267
Last modified:July 1, 1993 - 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:iFF3DF73DBBAF087E
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
X15587 Genomic DNA No translation available.
U18997 Genomic DNA Translation: AAA58209.1
U00096 Genomic DNA Translation: AAC76436.1
AP009048 Genomic DNA Translation: BAE77880.1

Protein sequence database of the Protein Information Resource

More...PIRi		F65136

NCBI Reference Sequences

More...RefSeqi		NP_417870.1, NC_000913.3
WP_000039062.1, NZ_SSZK01000008.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...EnsemblBacteriai		AAC76436; AAC76436; b3411
BAE77880; BAE77880; BAE77880

Database of genes from NCBI RefSeq genomes

More...GeneIDi		947917

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		ecj:JW3374
eco:b3411

Pathosystems Resource Integration Center (PATRIC)

More...PATRICi		fig|1411691.4.peg.3318

<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
X15587 Genomic DNA No translation available.
U18997 Genomic DNA Translation: AAA58209.1
U00096 Genomic DNA Translation: AAC76436.1
AP009048 Genomic DNA Translation: BAE77880.1
PIRiF65136
RefSeqiNP_417870.1, NC_000913.3
WP_000039062.1, NZ_SSZK01000008.1

3D structure databases

Database of comparative protein structure models

More...ModBasei		Search...

SWISS-MODEL Interactive Workspace

More...SWISS-MODEL-Workspacei		Submit a new modelling project...

Protein-protein interaction databases

BioGridi4263493, 9 interactors
DIPiDIP-12335N
IntActiP31667, 1 interactor
STRINGi511145.b3411

Proteomic databases

PaxDbiP31667
PRIDEiP31667

Genome annotation databases

EnsemblBacteriaiAAC76436; AAC76436; b3411
BAE77880; BAE77880; BAE77880
GeneIDi947917
KEGGiecj:JW3374
eco:b3411
PATRICifig|1411691.4.peg.3318

Organism-specific databases

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

More...EchoBASEi		EB1700

Phylogenomic databases

eggNOGiENOG4105DNE Bacteria
COG5464 LUCA
HOGENOMiHOG000116866
InParanoidiP31667
PhylomeDBiP31667

Enzyme and pathway databases

BioCyciEcoCyc:EG11750-MONOMER
ECOL316407:JW3374-MONOMER
MetaCyc:EG11750-MONOMER

Miscellaneous databases

Protein Ontology

More...PROi		PR:P31667

Family and domain databases

InterProiView protein in InterPro
IPR010106 RpnA
IPR006842 Transposase_31
PfamiView protein in Pfam
PF04754 Transposase_31, 1 hit
TIGRFAMsiTIGR01784 T_den_put_tspse, 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 nameiRPNA_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: P31667
Secondary accession number(s): Q2M776
<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: July 1, 1993
Last sequence update: July 1, 1993
Last modified: November 13, 2019
This is version 127 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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