Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

Ribonuclease 3

Gene

rnc

Organism
Variovorax paradoxus (strain S110)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Digests double-stranded RNA. Involved in the processing of primary rRNA transcript to yield the immediate precursors to the large and small rRNAs (23S and 16S). Processes some mRNAs, and tRNAs when they are encoded in the rRNA operon. Processes pre-crRNA and tracrRNA of type II CRISPR loci if present in the organism.UniRule annotation

Catalytic activityi

Endonucleolytic cleavage to 5'-phosphomonoester.UniRule annotation

Cofactori

Mg2+UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi40 – 401MagnesiumUniRule annotation
Active sitei44 – 441UniRule annotation
Metal bindingi113 – 1131MagnesiumUniRule annotation
Active sitei116 – 1161UniRule annotation
Metal bindingi116 – 1161MagnesiumUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Endonuclease, Hydrolase, Nuclease

Keywords - Biological processi

mRNA processing, rRNA processing, tRNA processing

Keywords - Ligandi

Magnesium, Metal-binding, RNA-binding, rRNA-binding

Enzyme and pathway databases

BioCyciVPAR543728:GHLL-1411-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Ribonuclease 3UniRule annotation (EC:3.1.26.3UniRule annotation)
Alternative name(s):
Ribonuclease IIIUniRule annotation
Short name:
RNase IIIUniRule annotation
Gene namesi
Name:rncUniRule annotation
Ordered Locus Names:Vapar_1402
OrganismiVariovorax paradoxus (strain S110)
Taxonomic identifieri543728 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesComamonadaceaeVariovorax
ProteomesiUP000000453 Componenti: Chromosome 1

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 228228Ribonuclease 3PRO_1000202847Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi543728.Vapar_1402.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini5 – 127123RNase IIIUniRule annotationAdd
BLAST
Domaini154 – 22471DRBMUniRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 DRBM (double-stranded RNA-binding) domain.UniRule annotation
Contains 1 RNase III domain.UniRule annotation

Phylogenomic databases

eggNOGiCOG0571.
HOGENOMiHOG000246809.
KOiK03685.
OMAiSADHNER.
OrthoDBiEOG6T1WVS.

Family and domain databases

Gene3Di1.10.1520.10. 1 hit.
3.30.160.20. 1 hit.
HAMAPiMF_00104. RNase_III.
InterProiIPR014720. dsRNA-bd_dom.
IPR011907. RNase_III.
IPR000999. RNase_III_dom.
[Graphical view]
PANTHERiPTHR11207. PTHR11207. 1 hit.
PfamiPF00035. dsrm. 1 hit.
PF14622. Ribonucleas_3_3. 1 hit.
[Graphical view]
SMARTiSM00358. DSRM. 1 hit.
SM00535. RIBOc. 1 hit.
[Graphical view]
SUPFAMiSSF69065. SSF69065. 1 hit.
TIGRFAMsiTIGR02191. RNaseIII. 1 hit.
PROSITEiPS50137. DS_RBD. 1 hit.
PS00517. RNASE_3_1. 1 hit.
PS50142. RNASE_3_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

C5CSF5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDGGLTALQE RLKHSFSDTR LLQLALTHRS FSADHNERLE FLGDSVLNLA
60 70 80 90 100
VSHLLYTRLS ALPEGDLSRV RANLVKQDTL HRLALELQLS PLLRLGEGEA
110 120 130 140 150
RSGGPNRPSI LADALEALIG AVYLDAGFSA AEALVRRLYE SVEINPRMDA
160 170 180 190 200
VAKDPKTELQ EWLQGHKMKL PVYRVAATLG AAHKQTFDVE CEVPELGLRE
210 220
RGIGGSRRAG EQAAAAAMLI RLKARGAA
Length:228
Mass (Da):24,876
Last modified:July 28, 2009 - v1
Checksum:i81FA9E801F426F7A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001635 Genomic DNA. Translation: ACS18053.1.
RefSeqiWP_012746547.1. NC_012791.1.
YP_002943319.1. NC_012791.1.

Genome annotation databases

EnsemblBacteriaiACS18053; ACS18053; Vapar_1402.
KEGGivap:Vapar_1402.
PATRICi24003232. VBIVarPar36677_1423.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001635 Genomic DNA. Translation: ACS18053.1.
RefSeqiWP_012746547.1. NC_012791.1.
YP_002943319.1. NC_012791.1.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi543728.Vapar_1402.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACS18053; ACS18053; Vapar_1402.
KEGGivap:Vapar_1402.
PATRICi24003232. VBIVarPar36677_1423.

Phylogenomic databases

eggNOGiCOG0571.
HOGENOMiHOG000246809.
KOiK03685.
OMAiSADHNER.
OrthoDBiEOG6T1WVS.

Enzyme and pathway databases

BioCyciVPAR543728:GHLL-1411-MONOMER.

Family and domain databases

Gene3Di1.10.1520.10. 1 hit.
3.30.160.20. 1 hit.
HAMAPiMF_00104. RNase_III.
InterProiIPR014720. dsRNA-bd_dom.
IPR011907. RNase_III.
IPR000999. RNase_III_dom.
[Graphical view]
PANTHERiPTHR11207. PTHR11207. 1 hit.
PfamiPF00035. dsrm. 1 hit.
PF14622. Ribonucleas_3_3. 1 hit.
[Graphical view]
SMARTiSM00358. DSRM. 1 hit.
SM00535. RIBOc. 1 hit.
[Graphical view]
SUPFAMiSSF69065. SSF69065. 1 hit.
TIGRFAMsiTIGR02191. RNaseIII. 1 hit.
PROSITEiPS50137. DS_RBD. 1 hit.
PS00517. RNASE_3_1. 1 hit.
PS50142. RNASE_3_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Complete genome sequence of the metabolically versatile plant growth-promoting endophyte, Variovorax paradoxus S110."
    Han J.I., Choi H.K., Lee S.W., Orwin P.M., Kim J., Laroe S.L., Kim T.G., O'Neil J., Leadbetter J.R., Lee S.Y., Hur C.G., Spain J.C., Ovchinnikova G., Goodwin L., Han C.
    J. Bacteriol. 193:1183-1190(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: S110.

Entry informationi

Entry nameiRNC_VARPS
AccessioniPrimary (citable) accession number: C5CSF5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 22, 2009
Last sequence update: July 28, 2009
Last modified: May 27, 2015
This is version 44 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.