Table 1.
List of non-ribosomal proteins, which interact with Hfq in the presence or in the absence of RNA as revealed by TAP-tag experiments.
| Exponential phase RNA dependent | Stationary phase RNA dependent | |||
|---|---|---|---|---|
| + | − | + | − | |
| Rho | Rho | Transcription termination factor Rho | ||
| DeaD | ATP-dependent RNA helicase deaD | |||
| Pnp | Pnp | Polynucleotide phosphorylase (PNPase) | ||
| Rne | Rne | Ribonuclease E | ||
| Lon | Lon | Lon protease | ||
| YhbS | YhbS | Uncharacterized N-acetyltransferase YhbS | ||
| RluB | RluB | Ribosomal large subunit pseudouridine synthase B | ||
| RpoC | RpoC | DNA-directed RNA polymerase subunit beta’ | ||
| RluC | RluC | Ribosomal large subunit pseudouridine synthase C | ||
| PcnB | PcnB | Poly(A) polymerase (PAP) | ||
| CsrA | CsrA | Carbon storage regulato | ||
| RhlB | RhlB | ATP-dependent RNA helicase rhlB | ||
| RpoB | RpoB | DNA-directed RNA polymerase subunit beta | ||
| RimM | RimM | Ribosome maturation factor rimM | ||
| TnaA | TnaA | Tryptophanase | ||
| Pss | CDP-diacylglycerol–serine O- phosphatidyltransferase | |||
| Rnr | Ribonuclease R | |||
| KatGI | Catalase-peroxidase 1 | |||
| FadI | 3-ketoacyl-CoA thiolase | |||
| Tig | Trigger factor | |||
| YfiF | Uncharacterized tRNA/rRNA methyltransferase | |||
| FadJ | Fatty acid oxidation complex subunit alpha | |||
| CysY | Citrate synthase | |||
| EF-Tu | EF-Tu | Elongation Factor Tu | ||
| AceA | isocitrate lyase | |||
| GyrA | GyrA | DNA gyrase subunit A | ||
| Odp1 | Odp1 | Pyruvate deshydrogenase E1 component | ||
| DnaK | DnaK | Chaperone protein dnaK | ||
| LpxD | LpxD | UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase | ||
| FabB | FabB | 3-oxoacyl-[acyl-carrier-protein] synthase 1 | ||
| OmpR | Transcriptional regulatory protein ompR | |||
| StpA | StpA | DNA-binding protein stpA | ||
| AtpA | ATP synthase subunit alpha | |||
| Pt1 | Phosphoenolpyruvate-protein phosphotransferase | |||
| UxuA | Mannonate dehydratase | |||
| CysK | Cysteine synthase A | |||
| EutB | Ethanolamine ammonia-lyase heavy chain | |||
| HslU | ATP-dependent protease ATPase subunit hslU | |||
| PutA | Bifunctional protein putA | |||
| TyrR | Transcriptional regulatory protein tyrR | |||
| AtpB | ATP synthase subunit beta | |||
| SthA | Soluble pyridine nucleotide transhydrogenase | |||
| SspB | Stringent starvation protein B | |||
The proteins, which interact with HfqTT, but not with the TAP-tag, in the presence or in the absence of RNA in exponential and stationary phases, as revealed by TAP-tag experiments with the highest score numbers (≥4) are listed (see Table S3). A short description of each protein is given.