Q12KI1 (RNC_SHEDO) Reviewed, UniProtKB/Swiss-Prot

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:	Sden_2766

Organism

Shewanella denitrificans (strain OS217 / ATCC BAA-1090 / DSM 15013) [Complete proteome] [HAMAP]

Taxonomic identifier

318161 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Proteobacteria › Gammaproteobacteria › Alteromonadales › Shewanellaceae › Shewanella › Shewanella denitrificans

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 primary rRNA transcript to yield the immediate precursors to the large and small rRNAs (23S and 16S). Also processes some mRNAs, and tRNAs when they are encoded in the rRNA operon By similarity. HAMAP-Rule MF_00104
Catalytic activity	Endonucleolytic cleavage to 5'-phosphomonoester. HAMAP-Rule MF_00104
Cofactor	Mg2+ By similarity.
Subunit structure	Homodimer By similarity.
Subcellular location	Cytoplasm By similarity.
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
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_1000075811
Regions
	Domain	7 – 129	123	RNase III
	Domain	156 – 226	71	DRBM
Sites
	Active site	46	1	Potential
	Active site	118	1	By similarity
	Metal binding	42	1	Magnesium By similarity
	Metal binding	115	1	Magnesium By similarity
	Metal binding	118	1	Magnesium By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q12KI1 [UniParc]. Last modified August 22, 2006. Version 1. Checksum: FED1793D5DCCBC93	FASTA	226	25,323
	10 20 30 40 50 60 MEPVKNLARL SRTLGYEFTN QELLVQALTH RSAANKHNER LEFLGDSILS IVISDALYHQ 70 80 90 100 110 120 FPKATEGDLS RMRATLVKGE TLTLIAKEFK LGDYLFLGPG ELKSGGFRRE SILADAVEAI 130 140 150 160 170 180 IGAVYLDANM QACETLLLSW YKVRLDEIKP GINQKDPKTI LQEYLQGYKK PLPDYQVVQV 190 200 210 220 DGEAHDQTFT VECRIQDLDE VVTGVGSSRR KAEQLAAAQI LELINK

References

[1]

"Complete sequence of Shewanella denitrificans OS217." US DOE Joint Genome Institute Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina del Rio T., Hammon N., Israni S., Dalin E., Tice H., Pitluck S., Brettin T., Bruce D., Han C., Tapia R., Gilna P., Kiss H., Schmutz J. , Larimer F., Land M., Hauser L., Kyrpides N., Lykidis A., Richardson P. Submitted (MAR-2006) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: OS217 / ATCC BAA-1090 / DSM 15013.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP000302 Genomic DNA. Translation: ABE56045.1.
RefSeq	YP_563768.1. NC_007954.1.
3D structure databases
ProteinModelPortal	Q12KI1.
ModBase	Search...
Protein-protein interaction databases
STRING	318161.Sden_2766.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	ABE56045; ABE56045; Sden_2766.
GeneID	4019285.
KEGG	sdn:Sden_2766.
PATRIC	23491542. VBISheDen79529_2905.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	COG0571.
HOGENOM	HOG000246809.
KO	K03685.
OMA	RACELPR.
ProtClustDB	PRK00102.
Enzyme and pathway databases
BioCyc	SDEN318161:GHKQ-2893-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_SHEDO

Accession

Primary (citable) accession number: Q12KI1

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 20, 2008
Last sequence update:	August 22, 2006
Last modified:	May 1, 2013
This is version 51 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program