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Protein

Putative pre-16S rRNA nuclease

Gene

yqgF

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Involved in the processing of the 5'-end of pre-16S rRNA during 70S ribosome maturation (processing does not occur on total cellular RNA off the ribosome); may be a nuclease (PubMed:25545592). A temperature-sensitive yqgF mutant no longer grows when Rho or NusA are overproduced, and has reduced transcription of genes encoded downstream of Rho terminators; transcription increases again in the presence of the Rho inhibitor bicylomycin (PubMed:22353788).2 Publications

Caution

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

GO - Molecular functioni

  • 3'-5'-exodeoxyribonuclease activity Source: EcoCyc

GO - Biological processi

  • ribosome biogenesis Source: UniProtKB
  • rRNA 5'-end processing Source: UniProtKB

Keywordsi

Molecular functionHydrolase, Nuclease
Biological processRibosome biogenesis

Enzyme and pathway databases

BioCyciEcoCyc:G7525-MONOMER
MetaCyc:G7525-MONOMER

Names & Taxonomyi

Protein namesi
Recommended name:
Putative pre-16S rRNA nucleaseUniRule annotationCurated (EC:3.1.-.-UniRule annotation)
Gene namesi
Name:yqgFUniRule annotation
Synonyms:ruvXCurated
Ordered Locus Names:b2949, JW2916
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG13290 yqgF

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Disruption phenotypei

Essential, it cannot be disrupted.1 Publication

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi9D → A: Does not process pre-16S rRNA in 70S ribosomes, binds to pre-16S rRNA-containing ribosomes. 1 Publication1
Mutagenesisi96E → A: Does not process pre-16S rRNA in 70S ribosomes. 1 Publication1
Mutagenesisi100T → I: Does not process pre-16S rRNA in 70S ribosomes. 1 Publication1
Mutagenesisi103A → I: Allows cell growth, i.e. not toxic. 1 Publication1
Mutagenesisi105S → I: Allows cell growth, i.e. not toxic. 1 Publication1
Mutagenesisi108 – 115Missing : Does not process pre-16S rRNA in 70S ribosomes. 1 Publication8
Mutagenesisi122D → A: Does not process pre-16S rRNA in 70S ribosomes, binds quite strongly to pre-16S rRNA-containing ribosomes. 1 Publication1
Mutagenesisi125S → A: Allows cell growth, i.e. not toxic. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001720581 – 138Putative pre-16S rRNA nucleaseAdd BLAST138

Proteomic databases

PaxDbiP0A8I1
PRIDEiP0A8I1

Interactioni

Subunit structurei

Monomer.1 Publication

Protein-protein interaction databases

BioGridi4259241, 196 interactors
IntActiP0A8I1, 9 interactors
STRINGi316385.ECDH10B_3124

Structurei

Secondary structure

1138
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi4 – 9Combined sources6
Beta strandi12 – 21Combined sources10
Turni22 – 25Combined sources4
Beta strandi26 – 36Combined sources11
Helixi42 – 52Combined sources11
Beta strandi55 – 63Combined sources9
Beta strandi65 – 68Combined sources4
Helixi71 – 87Combined sources17
Beta strandi91 – 97Combined sources7
Helixi118 – 121Combined sources4
Helixi124 – 135Combined sources12

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1NMNX-ray2.30A/B1-138[»]
1NU0X-ray1.60A/B1-138[»]
1OVQNMR-A1-138[»]
ProteinModelPortaliP0A8I1
SMRiP0A8I1
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP0A8I1

Family & Domainsi

Sequence similaritiesi

Belongs to the YqgF nuclease family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4107Y66 Bacteria
COG0816 LUCA
HOGENOMiHOG000016954
InParanoidiP0A8I1
KOiK07447
OMAiDERMSTV
PhylomeDBiP0A8I1

Family and domain databases

Gene3Di3.30.420.140, 1 hit
HAMAPiMF_00651 Nuclease_YqgF, 1 hit
InterProiView protein in InterPro
IPR012337 RNaseH-like_sf
IPR005227 YqgF
IPR006641 YqgF/RNaseH-like_dom
IPR037027 YqgF/RNaseH-like_dom_sf
PANTHERiPTHR33317 PTHR33317, 1 hit
PfamiView protein in Pfam
PF03652 RuvX, 1 hit
SMARTiView protein in SMART
SM00732 YqgFc, 1 hit
SUPFAMiSSF53098 SSF53098, 1 hit
TIGRFAMsiTIGR00250 RNAse_H_YqgF, 1 hit

Sequencei

Sequence statusi: Complete.

P0A8I1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSGTLLAFDF GTKSIGVAVG QRITGTARPL PAIKAQDGTP DWNIIERLLK
60 70 80 90 100
EWQPDEIIVG LPLNMDGTEQ PLTARARKFA NRIHGRFGVE VKLHDERLST
110 120 130
VEARSGLFEQ GGYRALNKGK VDSASAVIIL ESYFEQGY
Length:138
Mass (Da):15,186
Last modified:June 7, 2005 - v1
Checksum:i89650665AA5C1E50
GO

Sequence cautioni

The sequence AAA69116 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U28377 Genomic DNA Translation: AAA69116.1 Different initiation.
U00096 Genomic DNA Translation: AAC75986.1
AP009048 Genomic DNA Translation: BAE77012.1
PIRiD65080
RefSeqiNP_417424.1, NC_000913.3
WP_000017106.1, NZ_LN832404.1

Genome annotation databases

EnsemblBacteriaiAAC75986; AAC75986; b2949
BAE77012; BAE77012; BAE77012
GeneIDi947439
KEGGiecj:JW2916
eco:b2949
PATRICifig|1411691.4.peg.3784

Similar proteinsi

Entry informationi

Entry nameiYQGF_ECOLI
AccessioniPrimary (citable) accession number: P0A8I1
Secondary accession number(s): P52050, Q2M9P4
Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 7, 2005
Last sequence update: June 7, 2005
Last modified: March 28, 2018
This is version 98 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

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