A0LGM1 (RNC_SYNFM) 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:	Sfum_0876

Organism

Syntrophobacter fumaroxidans (strain DSM 10017 / MPOB) [Complete proteome] [HAMAP]

Taxonomic identifier

335543 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Proteobacteria › delta/epsilon subdivisions › Deltaproteobacteria › Syntrophobacterales › Syntrophobacteraceae › Syntrophobacter › Syntrophobacter fumaroxidans

Protein attributes

Sequence length	242 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 – 242	242	Ribonuclease 3 HAMAP-Rule MF_00104		PRO_1000075843
Regions
	Domain	7 – 136	130	RNase III
	Domain	167 – 236	70	DRBM
Sites
	Active site	53	1	Potential
	Active site	125	1	By similarity
	Metal binding	49	1	Magnesium By similarity
	Metal binding	122	1	Magnesium By similarity
	Metal binding	125	1	Magnesium By similarity

Sequences

	Sequence		Length	Mass (Da)
	A0LGM1 [UniParc]. Last modified December 12, 2006. Version 1. Checksum: EB2BBCA0DC3BFB1A	FASTA	242	27,087
	10 20 30 40 50 60 MKPSDGLEAL QNLLGYRFGD EGLLHRALVH RSYLHENPHL DEKDNETLEF LGDAVLGLAI 70 80 90 100 110 120 SHFLLEQFPD YNEGELSRLR SAIVNERELT RIAVELNLGE YLLLGKGEEM TGGRRKASLL 130 140 150 160 170 180 ADSLEALLAS IYLDGGLDAV LGVIKKLFDV YLRFEKREHV LKALDKDYKT QLQELTQARY 190 200 210 220 230 240 KLTPVYVLDR EEGPDHDKTF HMNVVLEGQV LAGGSGKSKK DAQQAAAEKA LQIIAADSWS LD

References

[1]

"Complete sequence of Syntrophobacter fumaroxidans MPOB." US DOE Joint Genome Institute Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina del Rio T., Hammon N., Israni S., Pitluck S., Goltsman E.G., Martinez M., Schmutz J., Larimer F., Land M., Hauser L., Kyrpides N., Kim E., Boone D.R. , Brockman F., Culley D., Ferry J., Gunsalus R., McInerney M.J., Morrison M., Plugge C., Rohlin L., Scholten J., Sieber J., Stams A.J.M., Worm P., Henstra A.M., Richardson P. Submitted (OCT-2006) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: DSM 10017 / MPOB.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP000478 Genomic DNA. Translation: ABK16573.1.
RefSeq	YP_845008.1. NC_008554.1.
3D structure databases
ModBase	Search...
Protein-protein interaction databases
STRING	335543.Sfum_0876.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	ABK16573; ABK16573; Sfum_0876.
GeneID	4460500.
KEGG	sfu:Sfum_0876.
PATRIC	23846855. VBISynFum78438_1015.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	COG0571.
HOGENOM	HOG000246808.
KO	K03685.
OMA	LTHKSCK.
ProtClustDB	PRK00102.
Enzyme and pathway databases
BioCyc	SFUM335543:GH6P-940-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_SYNFM

Accession

Primary (citable) accession number: A0LGM1

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 20, 2008
Last sequence update:	December 12, 2006
Last modified:	May 1, 2013
This is version 47 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program