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Protein

Ribonuclease 3

Gene

rnc

Organism
Rhodobacter capsulatus (Rhodopseudomonas capsulata)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Digests double-stranded RNA. Involved in the processing of ribosomal RNA precursors and of some mRNAs. Complements an E.coli disruption mutant, but the E.coli enzyme does not cleave R.capsulatus rRNA precursor, showing substrate recognition is different. Probably also processes some mRNAs, and tRNAs when they are encoded in the rRNA operon. Probably processes pre-crRNA and tracrRNA of type II CRISPR loci if present in the organism.3 Publications

Catalytic activityi

Endonucleolytic cleavage to 5'-phosphomonoester.

Cofactori

Mg2+1 Publication

pH dependencei

Optimum pH is 7.5 at 32 degrees Celsius.1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi45MagnesiumBy similarity1
Active sitei49Sequence analysis1
Metal bindingi118MagnesiumBy similarity1
Active sitei121By similarity1
Metal bindingi121MagnesiumBy similarity1

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

Names & Taxonomyi

Protein namesi
Recommended name:
Ribonuclease 3 (EC:3.1.26.3)
Alternative name(s):
Ribonuclease III
Short name:
RNase III
Gene namesi
Name:rnc
OrganismiRhodobacter capsulatus (Rhodopseudomonas capsulata)
Taxonomic identifieri1061 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodobacteralesRhodobacteraceaeRhodobacter

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Disruption phenotypei

Loss of processing of 23S rRNA. Full complementation requires both lep and rnc genes, suggesting they form an operon.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001804271 – 228Ribonuclease 3Add BLAST228

Interactioni

Subunit structurei

Homodimer.By similarity

Protein-protein interaction databases

STRINGi272942.RCAP_rcc03311.

Structurei

3D structure databases

ProteinModelPortaliQ52698.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini7 – 132RNase IIIAdd BLAST126
Domaini157 – 226DRBMAdd BLAST70

Sequence similaritiesi

Contains 1 RNase III domain.Curated

Phylogenomic databases

eggNOGiENOG4108ZBM. Bacteria.
COG0571. LUCA.

Family and domain databases

CDDicd00593. RIBOc. 1 hit.
Gene3Di1.10.1520.10. 1 hit.
3.30.160.20. 1 hit.
HAMAPiMF_00104. RNase_III. 1 hit.
InterProiIPR014720. dsRBD_dom.
IPR011907. RNase_III.
IPR000999. RNase_III_dom.
[Graphical view]
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.

Q52698-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKVAADLSAF MDRLGHRFTT PEHLVRALTH SSLGSATRPD NQRLEFLGDR
60 70 80 90 100
VLGLSMAEAL FHADGRASEG QLAPRFNALV RKETCAAVAR DIDLGAVLKL
110 120 130 140 150
GRSEMMSGGR RKDALLGDAM EAVIAAVYLD AGFEVARALV LRLWAARIQS
160 170 180 190 200
VDNDARDPKT ALQEWAQARG LPPPRYETLG RDGPDHAPQF RIAVVLASGE
210 220
TEEAQAGSKR NAEQAAAKAL LERLERGA
Length:228
Mass (Da):24,663
Last modified:November 1, 1996 - v1
Checksum:i8B4AEFF3434E699C
GO

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural varianti62H → D in strain: DSM 938. 1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z68305 Genomic DNA. Translation: CAA92647.1.
PIRiS66596.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z68305 Genomic DNA. Translation: CAA92647.1.
PIRiS66596.

3D structure databases

ProteinModelPortaliQ52698.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi272942.RCAP_rcc03311.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Phylogenomic databases

eggNOGiENOG4108ZBM. Bacteria.
COG0571. LUCA.

Family and domain databases

CDDicd00593. RIBOc. 1 hit.
Gene3Di1.10.1520.10. 1 hit.
3.30.160.20. 1 hit.
HAMAPiMF_00104. RNase_III. 1 hit.
InterProiIPR014720. dsRBD_dom.
IPR011907. RNase_III.
IPR000999. RNase_III_dom.
[Graphical view]
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...

Entry informationi

Entry nameiRNC_RHOCA
AccessioniPrimary (citable) accession number: Q52698
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1996
Last modified: September 7, 2016
This is version 84 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Miscellaneous

The protein in strain DMS 938 / 37b4 has 5 other sequence differences. In Rhodobacter species, 23S rRNA is further processed to 16S and 14S rRNA species in vivo, probably by RNase III.

Documents

  1. SIMILARITY comments
    Index of protein domains and families

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 one 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.