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Protein

Putative pre-16S rRNA nuclease

Gene

yrrK

Organism
Bacillus subtilis (strain 168)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Could be a nuclease involved in processing of the 5'-end of pre-16S rRNA.UniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Hydrolase, Nuclease

Keywords - Biological processi

Ribosome biogenesis

Enzyme and pathway databases

BioCyciBSUB:BSU27390-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Putative pre-16S rRNA nucleaseUniRule annotation (EC:3.1.-.-UniRule annotation)
Gene namesi
Name:yrrK
Synonyms:yqgf1 Publication
Ordered Locus Names:BSU27390
OrganismiBacillus subtilis (strain 168)
Taxonomic identifieri224308 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeBacillus
Proteomesi
  • UP000001570 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Disruption phenotypei

Not essential, it can be disrupted.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 138138Putative pre-16S rRNA nucleasePRO_0000172023Add
BLAST

Proteomic databases

PaxDbiO34634.

Interactioni

Protein-protein interaction databases

STRINGi224308.Bsubs1_010100014961.

Structurei

Secondary structure

1
138
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi2 – 87Combined sources
Beta strandi10 – 189Combined sources
Beta strandi22 – 3211Combined sources
Helixi35 – 373Combined sources
Helixi42 – 498Combined sources
Beta strandi52 – 609Combined sources
Helixi71 – 8717Combined sources
Beta strandi91 – 944Combined sources
Helixi100 – 10910Combined sources
Helixi114 – 13724Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1VHXX-ray1.96A/B2-138[»]
ProteinModelPortaliO34634.
SMRiO34634. Positions 1-138.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO34634.

Family & Domainsi

Sequence similaritiesi

Belongs to the YqgF nuclease family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4108Z08. Bacteria.
COG0816. LUCA.
HOGENOMiHOG000016953.
InParanoidiO34634.
KOiK07447.
OMAiPMGWTAQ.
OrthoDBiEOG6N94FV.
PhylomeDBiO34634.

Family and domain databases

Gene3Di3.30.420.140. 1 hit.
HAMAPiMF_00651. Nuclease_YqgF.
InterProiIPR012337. RNaseH-like_dom.
IPR005227. YqgF.
IPR006641. YqgF/RNaseH-like_dom.
[Graphical view]
PfamiPF03652. RuvX. 1 hit.
[Graphical view]
SMARTiSM00732. YqgFc. 1 hit.
[Graphical view]
SUPFAMiSSF53098. SSF53098. 1 hit.
TIGRFAMsiTIGR00250. RNAse_H_YqgF. 1 hit.

Sequencei

Sequence statusi: Complete.

O34634-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MRILGLDLGT KTLGVALSDE MGWTAQGIET IKINEAEGDY GLSRLSELIK
60 70 80 90 100
DYTIDKIVLG FPKNMNGTVG PRGEASQTFA KVLETTYNVP VVLWDERLTT
110 120 130
MAAEKMLIAA DVSRQKRKKV IDKMAAVMIL QGYLDSLN
Length:138
Mass (Da):15,210
Last modified:January 1, 1998 - v1
Checksum:i39F3EA8A6B3B1C06
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL009126 Genomic DNA. Translation: CAB14681.1.
PIRiD69979.
RefSeqiNP_390617.1. NC_000964.3.
WP_003229795.1. NZ_JNCM01000036.1.

Genome annotation databases

EnsemblBacteriaiCAB14681; CAB14681; BSU27390.
GeneIDi937357.
KEGGibsu:BSU27390.
PATRICi18977334. VBIBacSub10457_2856.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL009126 Genomic DNA. Translation: CAB14681.1.
PIRiD69979.
RefSeqiNP_390617.1. NC_000964.3.
WP_003229795.1. NZ_JNCM01000036.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1VHXX-ray1.96A/B2-138[»]
ProteinModelPortaliO34634.
SMRiO34634. Positions 1-138.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi224308.Bsubs1_010100014961.

Proteomic databases

PaxDbiO34634.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAB14681; CAB14681; BSU27390.
GeneIDi937357.
KEGGibsu:BSU27390.
PATRICi18977334. VBIBacSub10457_2856.

Phylogenomic databases

eggNOGiENOG4108Z08. Bacteria.
COG0816. LUCA.
HOGENOMiHOG000016953.
InParanoidiO34634.
KOiK07447.
OMAiPMGWTAQ.
OrthoDBiEOG6N94FV.
PhylomeDBiO34634.

Enzyme and pathway databases

BioCyciBSUB:BSU27390-MONOMER.

Miscellaneous databases

EvolutionaryTraceiO34634.

Family and domain databases

Gene3Di3.30.420.140. 1 hit.
HAMAPiMF_00651. Nuclease_YqgF.
InterProiIPR012337. RNaseH-like_dom.
IPR005227. YqgF.
IPR006641. YqgF/RNaseH-like_dom.
[Graphical view]
PfamiPF03652. RuvX. 1 hit.
[Graphical view]
SMARTiSM00732. YqgFc. 1 hit.
[Graphical view]
SUPFAMiSSF53098. SSF53098. 1 hit.
TIGRFAMsiTIGR00250. RNAse_H_YqgF. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The complete genome sequence of the Gram-positive bacterium Bacillus subtilis."
    Kunst F., Ogasawara N., Moszer I., Albertini A.M., Alloni G., Azevedo V., Bertero M.G., Bessieres P., Bolotin A., Borchert S., Borriss R., Boursier L., Brans A., Braun M., Brignell S.C., Bron S., Brouillet S., Bruschi C.V.
    , Caldwell B., Capuano V., Carter N.M., Choi S.-K., Codani J.-J., Connerton I.F., Cummings N.J., Daniel R.A., Denizot F., Devine K.M., Duesterhoeft A., Ehrlich S.D., Emmerson P.T., Entian K.-D., Errington J., Fabret C., Ferrari E., Foulger D., Fritz C., Fujita M., Fujita Y., Fuma S., Galizzi A., Galleron N., Ghim S.-Y., Glaser P., Goffeau A., Golightly E.J., Grandi G., Guiseppi G., Guy B.J., Haga K., Haiech J., Harwood C.R., Henaut A., Hilbert H., Holsappel S., Hosono S., Hullo M.-F., Itaya M., Jones L.-M., Joris B., Karamata D., Kasahara Y., Klaerr-Blanchard M., Klein C., Kobayashi Y., Koetter P., Koningstein G., Krogh S., Kumano M., Kurita K., Lapidus A., Lardinois S., Lauber J., Lazarevic V., Lee S.-M., Levine A., Liu H., Masuda S., Mauel C., Medigue C., Medina N., Mellado R.P., Mizuno M., Moestl D., Nakai S., Noback M., Noone D., O'Reilly M., Ogawa K., Ogiwara A., Oudega B., Park S.-H., Parro V., Pohl T.M., Portetelle D., Porwollik S., Prescott A.M., Presecan E., Pujic P., Purnelle B., Rapoport G., Rey M., Reynolds S., Rieger M., Rivolta C., Rocha E., Roche B., Rose M., Sadaie Y., Sato T., Scanlan E., Schleich S., Schroeter R., Scoffone F., Sekiguchi J., Sekowska A., Seror S.J., Serror P., Shin B.-S., Soldo B., Sorokin A., Tacconi E., Takagi T., Takahashi H., Takemaru K., Takeuchi M., Tamakoshi A., Tanaka T., Terpstra P., Tognoni A., Tosato V., Uchiyama S., Vandenbol M., Vannier F., Vassarotti A., Viari A., Wambutt R., Wedler E., Wedler H., Weitzenegger T., Winters P., Wipat A., Yamamoto H., Yamane K., Yasumoto K., Yata K., Yoshida K., Yoshikawa H.-F., Zumstein E., Yoshikawa H., Danchin A.
    Nature 390:249-256(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 168.
  2. "Essential Bacillus subtilis genes."
    Kobayashi K., Ehrlich S.D., Albertini A., Amati G., Andersen K.K., Arnaud M., Asai K., Ashikaga S., Aymerich S., Bessieres P., Boland F., Brignell S.C., Bron S., Bunai K., Chapuis J., Christiansen L.C., Danchin A., Debarbouille M.
    , Dervyn E., Deuerling E., Devine K., Devine S.K., Dreesen O., Errington J., Fillinger S., Foster S.J., Fujita Y., Galizzi A., Gardan R., Eschevins C., Fukushima T., Haga K., Harwood C.R., Hecker M., Hosoya D., Hullo M.F., Kakeshita H., Karamata D., Kasahara Y., Kawamura F., Koga K., Koski P., Kuwana R., Imamura D., Ishimaru M., Ishikawa S., Ishio I., Le Coq D., Masson A., Mauel C., Meima R., Mellado R.P., Moir A., Moriya S., Nagakawa E., Nanamiya H., Nakai S., Nygaard P., Ogura M., Ohanan T., O'Reilly M., O'Rourke M., Pragai Z., Pooley H.M., Rapoport G., Rawlins J.P., Rivas L.A., Rivolta C., Sadaie A., Sadaie Y., Sarvas M., Sato T., Saxild H.H., Scanlan E., Schumann W., Seegers J.F., Sekiguchi J., Sekowska A., Seror S.J., Simon M., Stragier P., Studer R., Takamatsu H., Tanaka T., Takeuchi M., Thomaides H.B., Vagner V., van Dijl J.M., Watabe K., Wipat A., Yamamoto H., Yamamoto M., Yamamoto Y., Yamane K., Yata K., Yoshida K., Yoshikawa H., Zuber U., Ogasawara N.
    Proc. Natl. Acad. Sci. U.S.A. 100:4678-4683(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: DISRUPTION PHENOTYPE.
    Strain: 168.
  3. Cited for: X-RAY CRYSTALLOGRAPHY (1.96 ANGSTROMS) OF 2-138, DISCUSSION OF POSSIBLE FUNCTION.

Entry informationi

Entry nameiYQGF_BACSU
AccessioniPrimary (citable) accession number: O34634
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: January 1, 1998
Last modified: February 17, 2016
This is version 115 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Caution

Was originally suggested to be a nuclease that resolves Holliday junction intermediates during genetic recombination.1 Publication

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Bacillus subtilis
    Bacillus subtilis (strain 168): entries, gene names and cross-references to SubtiList
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. 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.