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Entry version 90 (02 Dec 2020)
Sequence version 1 (09 Jan 2007)
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Protein

Ribonuclease J

Gene

rnj

Organism
Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155) (Mycobacterium smegmatis)
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

An RNase that has endonuclease and 5'-3' exonuclease activity. The 5'-exonuclease activity acts on 5'-monophosphate but not 5'-triphosphate ends. Endonuclease activity can cleave within 4 nucleotides of the 5'-end of a triphosphorylated RNA. Plays the major role in pre-23S rRNA maturation, and a minor role in processing of pre-5S and pre-16S rRNA.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

Zn2+UniRule annotationNote: Binds up to 2 Zn2+ ions per subunit. It is not clear if Zn2+ or Mg2+ is physiologically important.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 bindingi81Zinc 1; catalyticUniRule annotation1
Metal bindingi83Zinc 1; catalyticUniRule annotation1
Metal bindingi85Zinc 2; catalyticUniRule annotation1
Metal bindingi86Zinc 2; catalyticUniRule annotation1
Metal bindingi148Zinc 1; catalyticUniRule annotation1
Metal bindingi170Zinc 1; catalyticUniRule annotation1
Metal bindingi170Zinc 2; catalyticUniRule annotation1
Metal bindingi397Zinc 2; catalyticUniRule 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 functionEndonuclease, Exonuclease, Hydrolase, Nuclease, RNA-binding
Biological processrRNA processing
LigandMetal-binding, Zinc

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...
BioCyci
MSME246196:G1H7P-2685-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:
Ribonuclease JUniRule annotation (EC:3.1.-.-UniRule annotation)
Short name:
RNase JUniRule 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:rnjUniRule annotation
Ordered Locus Names:MSMEG_2685, MSMEI_2620
<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>OrganismiMycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155) (Mycobacterium smegmatis)
<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 identifieri246196 [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 lineageiBacteriaActinobacteriaCorynebacterialesMycobacteriaceaeMycolicibacterium
<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
  • UP000006158 <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
  • UP000000757 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

Non-essential, it can be deleted. No effect on processing of furA-katG operon mRNA or of pre-5S rRNA processing. Complete loss of mature 23S rRNA. Minor effects on pre-16S rRNA processing. A double rnj-rne depletion mutant indicates this enzyme plays a role in degradation of previously processed pre-16S rRNAs and a decrease in mature 5S rRNA.1 Publication

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/manual/pathology%5Fand%5Fbiotech%5Fsection">'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>Mutagenesisi85 – 86DH → KA: Severely decreases 5'-3' exonuclease activity, retains considerable endonuclease activity. 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 or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00004295781 – 558Ribonuclease JAdd BLAST558

<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%5Fsection">'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%5Fsection">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Homodimer.

By similarity

Protein-protein interaction databases

STRING: functional protein association networks

More...
STRINGi
246196.MSMEI_2620

<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
A0QVT2

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

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>Regioni371 – 375Substrate bindingUniRule annotation5

<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

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
COG0595, Bacteria

Identification of Orthologs from Complete Genome Data

More...
OMAi
KNTCVFE

Database of Orthologous Groups

More...
OrthoDBi
580619at2

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
3.40.50.10710, 1 hit
3.60.15.10, 1 hit

HAMAP database of protein families

More...
HAMAPi
MF_01491, RNase_J_bact, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR001279, Metallo-B-lactamas
IPR036866, RibonucZ/Hydroxyglut_hydro
IPR011108, RMMBL
IPR004613, RNase_J
IPR042173, RNase_J_2
IPR030854, RNase_J_bac
IPR041636, RNase_J_C

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF12706, Lactamase_B_2, 1 hit
PF07521, RMMBL, 1 hit
PF17770, RNase_J_C, 1 hit

PIRSF; a whole-protein classification database

More...
PIRSFi
PIRSF004803, RnjA, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00849, Lactamase_B, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF56281, SSF56281, 1 hit

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR00649, MG423, 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.

A0QVT2-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSAELAPPPP LAPGGLRVTA LGGISEIGRN MTVFEHLGRL LIVDCGVLFP
60 70 80 90 100
GHDEPGVDLI LPDLRHIEDR LDEIEALVVT HAHEDHIGAI PFLLKLRPDI
110 120 130 140 150
PVVGSKFTIA LVREKCREHR LKPKFVEVAE RQSSQHGVFE CEYFAVNHSI
160 170 180 190 200
PGCLAVAIHT GAGTVLHTGD IKLDQLPLDG RPTDLPGMSR LGDAGVDLFL
210 220 230 240 250
CDSTNSEHPG VSPSESEVGP TLHRLIRGAE GRVIVACFAS NVDRVQQIID
260 270 280 290 300
AAVALGRRVS FVGRSMVRNM GIARELGYLK VDDSDILDIA AAEMMPPDRV
310 320 330 340 350
VLITTGTQGE PMAALSRMSR GEHRSITLTS GDLIILSSSL IPGNEEAVYG
360 370 380 390 400
VIDSLSKIGA RVVTNAQARV HVSGHAYAGE LLFLYNGVRP RNVMPVHGTW
410 420 430 440 450
RHLRANAALA ASTGVPPENI VLAENGVSVD LVAGRASISG AVTVGKMFVD
460 470 480 490 500
GLITGDVGDA TLGERLILSS GFVSITVVVH RGTGRPAGPA HLISRGFSED
510 520 530 540 550
PKALEPVAQK VERELEALAA DNVTDPTRIA QAVRRTVGKW VGETYRRQPM

IVPTVIEI
Length:558
Mass (Da):59,617
Last modified:January 9, 2007 - 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:iDE2BF91DEFD4AFF8
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
CP000480 Genomic DNA Translation: ABK74200.1
CP001663 Genomic DNA Translation: AFP39088.1

NCBI Reference Sequences

More...
RefSeqi
WP_003894070.1, NZ_SIJM01000059.1
YP_887020.1, NC_008596.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
ABK74200; ABK74200; MSMEG_2685
AFP39088; AFP39088; MSMEI_2620

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
45744226

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
msb:LJ00_13360
msg:MSMEI_2620
msm:MSMEG_2685

Pathosystems Resource Integration Center (PATRIC)

More...
PATRICi
fig|246196.19.peg.2652

<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
CP000480 Genomic DNA Translation: ABK74200.1
CP001663 Genomic DNA Translation: AFP39088.1
RefSeqiWP_003894070.1, NZ_SIJM01000059.1
YP_887020.1, NC_008596.1

3D structure databases

SMRiA0QVT2
ModBaseiSearch...

Protein-protein interaction databases

STRINGi246196.MSMEI_2620

Genome annotation databases

EnsemblBacteriaiABK74200; ABK74200; MSMEG_2685
AFP39088; AFP39088; MSMEI_2620
GeneIDi45744226
KEGGimsb:LJ00_13360
msg:MSMEI_2620
msm:MSMEG_2685
PATRICifig|246196.19.peg.2652

Phylogenomic databases

eggNOGiCOG0595, Bacteria
OMAiKNTCVFE
OrthoDBi580619at2

Enzyme and pathway databases

BioCyciMSME246196:G1H7P-2685-MONOMER

Family and domain databases

Gene3Di3.40.50.10710, 1 hit
3.60.15.10, 1 hit
HAMAPiMF_01491, RNase_J_bact, 1 hit
InterProiView protein in InterPro
IPR001279, Metallo-B-lactamas
IPR036866, RibonucZ/Hydroxyglut_hydro
IPR011108, RMMBL
IPR004613, RNase_J
IPR042173, RNase_J_2
IPR030854, RNase_J_bac
IPR041636, RNase_J_C
PfamiView protein in Pfam
PF12706, Lactamase_B_2, 1 hit
PF07521, RMMBL, 1 hit
PF17770, RNase_J_C, 1 hit
PIRSFiPIRSF004803, RnjA, 1 hit
SMARTiView protein in SMART
SM00849, Lactamase_B, 1 hit
SUPFAMiSSF56281, SSF56281, 1 hit
TIGRFAMsiTIGR00649, MG423, 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 nameiRNJ_MYCS2
<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: A0QVT2
<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 9, 2014
Last sequence update: January 9, 2007
Last modified: December 2, 2020
This is version 90 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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