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Protein

Ribonuclease 3

Gene

rnc

Organism
Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)
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 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. Probably processes pre-crRNA and tracrRNA of type II CRISPR loci if present in the organism.1 Publication

Catalytic activityi

Endonucleolytic cleavage to 5'-phosphomonoester.

Cofactori

Mg2+1 Publication

pH dependencei

Optimum pH is 8.0.1 Publication

Temperature dependencei

Optimum temperature is 40-70 degrees Celsius.1 Publication

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi54 – 541MagnesiumBy similarity
Active sitei58 – 581Sequence Analysis
Metal bindingi127 – 1271MagnesiumBy similarity
Active sitei130 – 1301By similarity
Metal bindingi130 – 1301MagnesiumBy similarity

GO - Molecular functioni

  1. metal ion binding Source: UniProtKB-KW
  2. ribonuclease III activity Source: UniProtKB-HAMAP
  3. rRNA binding Source: UniProtKB-KW

GO - Biological processi

  1. mRNA processing Source: UniProtKB-HAMAP
  2. rRNA catabolic process Source: InterPro
  3. rRNA processing Source: UniProtKB-HAMAP
  4. tRNA processing Source: UniProtKB-KW
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

BRENDAi3.1.26.3. 6331.

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
Ordered Locus Names:TM_1102
OrganismiThermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)
Taxonomic identifieri243274 [NCBI]
Taxonomic lineageiBacteriaThermotogaeThermotogalesThermotogaceaeThermotoga
ProteomesiUP000008183 Componenti: Chromosome

Subcellular locationi

  1. Cytoplasm By similarity

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 240240Ribonuclease 3PRO_0000180448Add
BLAST

Interactioni

Subunit structurei

Homodimer.1 Publication

Protein-protein interaction databases

STRINGi243274.TM1102.

Structurei

Secondary structure

1
240
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi3 – 1614Combined sources
Helixi23 – 308Combined sources
Helixi33 – 419Combined sources
Helixi51 – 7222Combined sources
Helixi78 – 8811Combined sources
Helixi91 – 10010Combined sources
Helixi103 – 1064Combined sources
Helixi111 – 1155Combined sources
Helixi118 – 1203Combined sources
Helixi122 – 14019Combined sources
Helixi142 – 16120Combined sources
Helixi169 – 18113Combined sources
Beta strandi186 – 1938Combined sources
Beta strandi200 – 2078Combined sources
Beta strandi210 – 21910Combined sources
Helixi220 – 23516Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1O0WX-ray2.00A/B1-240[»]
SMRiQ9X0I6. Positions 1-237.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9X0I6.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini9 – 141133RNase IIIAdd
BLAST
Domaini168 – 23770DRBMAdd
BLAST

Sequence similaritiesi

Contains 1 RNase III domain.Curated

Phylogenomic databases

eggNOGiCOG0571.
InParanoidiQ9X0I6.
KOiK03685.
OMAiNSYANER.
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.

Q9X0I6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNESERKIVE EFQKETGINF KNEELLFRAL CHSSYANEQN QAGRKDVESN
60 70 80 90 100
EKLEFLGDAV LELFVCEILY KKYPEAEVGD LARVKSAAAS EEVLAMVSRK
110 120 130 140 150
MNLGKFLFLG KGEEKTGGRD RDSILADAFE ALLAAIYLDQ GYEKIKELFE
160 170 180 190 200
QEFEFYIEKI MKGEMLFDYK TALQEIVQSE HKVPPEYILV RTEKNDGDRI
210 220 230 240
FVVEVRVNGK TIATGKGRTK KEAEKEAARI AYEKLLKERS
Length:240
Mass (Da):27,530
Last modified:November 1, 1999 - v1
Checksum:i94330E8898D48A0D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000512 Genomic DNA. Translation: AAD36178.1.
PIRiH72294.
RefSeqiNP_228908.1. NC_000853.1.
YP_007977457.1. NC_021214.1.
YP_008991800.1. NC_023151.1.

Genome annotation databases

EnsemblBacteriaiAAD36178; AAD36178; TM_1102.
GeneIDi898663.
KEGGitma:TM1102.
tmi:THEMA_08835.
PATRICi23937137. VBITheMar51294_1117.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000512 Genomic DNA. Translation: AAD36178.1.
PIRiH72294.
RefSeqiNP_228908.1. NC_000853.1.
YP_007977457.1. NC_021214.1.
YP_008991800.1. NC_023151.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1O0WX-ray2.00A/B1-240[»]
SMRiQ9X0I6. Positions 1-237.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi243274.TM1102.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAD36178; AAD36178; TM_1102.
GeneIDi898663.
KEGGitma:TM1102.
tmi:THEMA_08835.
PATRICi23937137. VBITheMar51294_1117.

Phylogenomic databases

eggNOGiCOG0571.
InParanoidiQ9X0I6.
KOiK03685.
OMAiNSYANER.
OrthoDBiEOG6T1WVS.

Enzyme and pathway databases

BRENDAi3.1.26.3. 6331.

Miscellaneous databases

EvolutionaryTraceiQ9X0I6.

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

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 43589 / MSB8 / DSM 3109 / JCM 10099.
  2. "Thermotoga maritima ribonuclease III. Characterization of thermostable biochemical behavior and analysis of conserved base pairs that function as reactivity epitopes for the Thermotoga 23S rRNA precursor."
    Nathania L., Nicholson A.W.
    Biochemistry 49:7164-7178(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION AS AN RNASE, FUNCTION AS AN ENDONUCLEASE, BIOPHYSICOCHEMICAL PROPERTIES, COFACTOR, RRNA-BINDING.
  3. "Crystal structure of ribonuclease III (TM1102) from Thermotoga maritima at 2.0 A resolution."
    Joint center for structural genomics (JCSG)
    Submitted (FEB-2009) to the PDB data bank
    Cited for: X-RAY CRYSTALLOGRAPHY (2.0 ANGSTROMS), SUBUNIT.

Entry informationi

Entry nameiRNC_THEMA
AccessioniPrimary (citable) accession number: Q9X0I6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: November 1, 1999
Last modified: April 1, 2015
This is version 109 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. 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.