Ribonuclease 3 - Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)

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Q56056 (RNC_SALTY) Reviewed, UniProtKB/Swiss-Prot

Last modified May 29, 2013. Version 93. History...

Clusters with 100%, 90%, 50% identity |

Documents (1) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
Ribonuclease 3
EC=3.1.26.3

Alternative name(s):
Ribonuclease III
Short name=RNase III

Gene names

Name:	rnc
Ordered Locus Names:	STM2581

Organism

Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) [Reference proteome] [HAMAP]

Taxonomic identifier

99287 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacteriales › Enterobacteriaceae › Salmonella ›

Protein attributes

Sequence length	226 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	Digests double-stranded RNA. Involved in the processing of ribosomal RNA transcript to yield the immediate precursors to the large and small rRNAs (23S and 16S). Removes small helical intervening sequences (IVSs) from all 7 of the 23S rRNA transcripts. Probably also processes some mRNAs, and tRNAs when they are encoded in the rRNA operon. HAMAP-Rule MF_00104
Catalytic activity	Endonucleolytic cleavage to 5'-phosphomonoester. HAMAP-Rule MF_00104
Cofactor	Mg²⁺ By similarity. HAMAP-Rule MF_00104
Subunit structure	Homodimer By similarity. HAMAP-Rule MF_00104
Subcellular location	Cytoplasm By similarity HAMAP-Rule MF_00104.
Disruption phenotype	Accumulation of full length 23S rRNA as well as larger precursor rRNA transcripts. Strain grows slower than wild-type. Ref.3
Miscellaneous	This organism contains small helical (90-110 nucleotide) intervening sequences (IVSs) in all 7 23S rRNA genes at either the 550-bp or 1170-bp positions or both, accumulating the 23S rRNA as 2.4, 1.7, 1.6, 0.7, and 0.5 kb pieces. HAMAP-Rule MF_00104
Sequence similarities	Contains 1 DRBM (double-stranded RNA-binding) domain. Contains 1 RNase III domain.

Ontologies

Keywords
Biological process	mRNA processing rRNA processing tRNA processing
Cellular component	Cytoplasm
Ligand	Magnesium Metal-binding RNA-binding rRNA-binding
Molecular function	Endonuclease Hydrolase Nuclease
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	mRNA processing Inferred from electronic annotation. Source: HAMAP nucleic acid phosphodiester bond hydrolysis Inferred from electronic annotation. Source: GOC rRNA catabolic process Inferred from electronic annotation. Source: InterPro rRNA processing Inferred from electronic annotation. Source: HAMAP tRNA processing Inferred from electronic annotation. Source: UniProtKB-KW
Cellular_component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	double-stranded RNA binding Inferred from electronic annotation. Source: InterPro metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW rRNA binding Inferred from electronic annotation. Source: UniProtKB-KW ribonuclease III activity Inferred from electronic annotation. Source: HAMAP
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 226

226

Ribonuclease 3 HAMAP-Rule MF_00104

PRO_0000180429

Regions

Domain

6 – 128

123

RNase III

Domain

155 – 225

DRBM

Sites

Active site

Potential

Active site

117

By similarity

Metal binding

Magnesium By similarity

Metal binding

114

Magnesium By similarity

Metal binding

117

Magnesium By similarity

Experimental info

Sequence conflict

57 – 58

YH → S in AAA92440. Ref.1

Sequence conflict

73 – 74

AT → DP in AAA92440. Ref.1

Sequence conflict

217 – 220

EQAL → NSV in AAA92440. Ref.1

Sequences

Sequence

Length

Mass (Da)

Tools

Q56056 [UniParc].

Last modified January 23, 2002. Version 2.
Checksum: 5752C0113C0A055A
Show »

FASTA

226

25,505

        10         20         30         40         50         60 
MNPIVINRLQ RKLGYTFNHQ ELLQQALTHR SASSKHNERL EFLGDSILSF VIANALYHRF 

        70         80         90        100        110        120 
PRVDEGDMSR MRATLVRGNT LAELAREFDL GECLRLGPGE LKSGGFRRES ILADTVEALI 

       130        140        150        160        170        180 
GGVFLDSNIQ TVEQLILNWY KTRLDEISPG DKQKDPKTRL QEYLQGRHLP LPSYLVVQVR 

       190        200        210        220 
GEAHDQEFTI HCQVSGLSEP VVGTGSSRRK AEQAAAEQAL KKLELE

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Structure and regulation of the Salmonella typhimurium rnc-era-recO operon." Anderson P.E., Matsunaga J., Simons E.L., Simons R.W. Biochimie 78:1025-1034(1996) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: TSM117.
[2]	"Complete genome sequence of Salmonella enterica serovar Typhimurium LT2." McClelland M., Sanderson K.E., Spieth J., Clifton S.W., Latreille P., Courtney L., Porwollik S., Ali J., Dante M., Du F., Hou S., Layman D., Leonard S., Nguyen C., Scott K., Holmes A., Grewal N., Mulvaney E. Wilson R.K. Nature 413:852-856(2001) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: LT2 / SGSC1412 / ATCC 700720.
[3]	"RNase III deficient Salmonella typhimurium LT2 contains intervening sequences (IVSs) in its 23S rRNA." Mattatall N.R., Sanderson K.E. FEMS Microbiol. Lett. 159:179-185(1998) [PubMed] [Europe PMC] [Abstract] Cited for: DISRUPTION PHENOTYPE. Strain: LT2 / SGSC1412 / ATCC 700720.

Cross-references

Sequence databases
EMBL GenBank DDBJ	U48415 Genomic DNA. Translation: AAA92440.1. AE006468 Genomic DNA. Translation: AAL21475.1.
RefSeq	NP_461516.1. NC_003197.1.
3D structure databases
ProteinModelPortal	Q56056.
ModBase	Search...
Protein-protein interaction databases
STRING	99287.STM2581.
Proteomic databases
PRIDE	Q56056.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	AAL21475; AAL21475; STM2581.
GeneID	1254103.
KEGG	stm:STM2581.
PATRIC	32383799. VBISalEnt20916_2722.
Phylogenomic databases
HOGENOM	HOG000246809.
KO	K03685.
OMA	LTHKSCK.
ProtClustDB	PRK00102.
Enzyme and pathway databases
BioCyc	SENT99287:GCTI-2595-MONOMER.
Family and domain databases
Gene3D	1.10.1520.10. 1 hit. 3.30.160.20. 1 hit.
HAMAP	MF_00104. RNase_III.
InterPro	IPR001159. Ds-RNA-bd. IPR014720. dsRNA-bd-like_dom. IPR011907. RNase_III. IPR000999. RNase_III_dom. [Graphical view]
PANTHER	PTHR11207. PTHR11207. 1 hit.
Pfam	PF00035. dsrm. 1 hit. PF00636. Ribonuclease_3. 1 hit. [Graphical view]
SMART	SM00358. DSRM. 1 hit. SM00535. RIBOc. 1 hit. [Graphical view]
SUPFAM	SSF69065. RNase_III. 1 hit.
TIGRFAMs	TIGR02191. RNaseIII. 1 hit.
PROSITE	PS50137. DS_RBD. 1 hit. PS00517. RNASE_3_1. 1 hit. PS50142. RNASE_3_2. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

RNC_SALTY

Accession

Primary (citable) accession number: Q56056

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1997
Last sequence update:	January 23, 2002
Last modified:	May 29, 2013
This is version 93 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Molecule processing

Regions

Sites

Experimental info

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Phylogenomic databases

Enzyme and pathway databases

Family and domain databases

Entry information

Relevant documents