| Literature DB >> 26122105 |
Ryszard A Zielke1, Igor H Wierzbicki2, Benjamin I Baarda3, Aleksandra E Sikora4.
Abstract
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Year: 2015 PMID: 26122105 PMCID: PMC4487204 DOI: 10.1186/s12866-015-0453-1
Source DB: PubMed Journal: BMC Microbiol ISSN: 1471-2180 Impact factor: 3.605
Fig. 1ObgGC domain architecture. The individual structural domains of ObgGC are shown in green. The N-terminal domain (amino acids 3–158) is glycine-rich. The central, GTP-binding domain (residues 160–348) includes two switch elements (switch I and switch II) and five conserved G motifs (G1-G5; indicated in blue boxes). The C-terminal domain contains clusters of acidic residues. The conserved T192 and T193 residues within the G2 motifs and introduced substitutions are designated in red
Comparison of the amino acid sequences of the N. gonorrhoeae Obg protein with Obg homologs
| Organism | Accession number | Protein length | Region aligned | % identity | % similarity |
|---|---|---|---|---|---|
|
| B4RQP4 | 384 | 1-384 | 100 | 100 |
|
| Q9JXE5 | 384 | 1-384 | 98 | 98 |
|
| E4ZAV0 | 384 | 1-384 | 97 | 97 |
|
| G2DJV3 | 384 | 1-384 | 85 | 91 |
|
| P42641 | 390 | 1-344 | 56 | 71 |
|
| B8GYI7 | 354 | 1-320 | 52 | 67 |
|
| P20964 | 428 | 2-328 | 49 | 68 |
|
| O84423 | 335 | 2-335 | 43 | 62 |
|
| Q9H4K7* | 406 | 72-364 | 40 | 58 |
|
| A4D1E9** | 308 | 77-293 | 35 | 52 |
|
| P38860 | 518 | 295-488 | 40 | 61 |
*ObgH1 (GTP binding protein 5, GTBP5; mitochondrial ribosome-associated GTPase 2, MTG2)
**ObgH2 (GTP binding protein 10, GTPBP10)
Fig. 2Validation of polyclonal rabbit anti-ObgGC antisera. (a) The polyclonal rabbit anti-ObgGC antibodies were used to probe the whole-cell lysates derived from wild type FA1090 and isogenic P::obg as well as purified variants of ObgGC. The bacteria were harvested following 2 h of growth in GCBL with (+) and without (−) 100 μM IPTG, and the samples were matched by equivalent OD600 units. Purified recombinant proteins (40 ng) include wild type ObgGC with N-terminal 6 × His tag, (N-His-ObgGC) and N-His-ObgGC with T192AT193A substitutions. (b) Samples of whole-cell lysates derived from various Neisseria species, as indicated, were harvested from GCB and matched by equivalent OD600 units. All samples were separated in 4-20 % Mini-PROTEAN TGX precast gels, the proteins were transferred onto the nitrocellulose membrane and probed with polyclonal rabbit anti-ObgGC antisera raised against N-His-ObgGC
Fig. 3Biochemical properties of ObgGC. a GTPase cycle. Obg GTPases oscillate between active (ON, GTP-bound) and inactive (OFF, GDP-bound) states. b ObgGC binds mant-GTP and mant-GDP with guanine nucleotide-specific Mg2+ dependence. Binding of mant-GTP (red circles) and mant-GDP (blue squares) to N-His-ObgGC was assessed in the presence of varying concentrations of Mg2+. The averages with SEM from three independent experiments are shown. c Increase in Relative Fluorescence Units (RFU) of mant-GTP (red bars) and mant-GDP (blue bars) upon addition of different ObgGC variants: recombinant wild type ObgGC with N- and C-terminal 6 × His tag (N-His-ObgGC and C-His-ObgGC, respectively), and N-His-ObgGC with T192AT193A substitutions. The data shows averages with corresponding SEM of at least eight experiments performed on separate occasions. d Hydrolysis of mant-GTP by N-His-ObgGC (green) and C-His-ObgGC (red) was monitored by recording the decrease in fluorescence that is coupled to the conversion of mant-GTP-Obg to mant-GDP-Obg complexes. Data from at least four experiments were fitted to a single exponential decay equation. The fluorescence intensity of the mant-GTP in the absence of protein served as a control and is shown in black
Fig. 4ObgGC is essential for GC viability. a The FA1090 conditional obg knockout strain, P::obg , failed to grow when plated from freezer stocks onto GCB without (−) 100 μM IPTG, whereas abundant growth was observed on media supplemented with the inducer (+). b, c FA1090 cells carrying chromosomal P::obg were collected from GCB agar plates supplemented with 100 uM IPTG, washed, divided, and grown in GCBL in the presence or absence of IPTG for 3 h. At this experimental time point (indicated by the blue arrow), the bacteria were harvested, washed again and growth was continued for 6 h in liquid media with (+) or without (−) IPTG, as indicated. Culture density was measured as Optical Density at OD600 (b). Cell viability was monitored every hour after the second inoculation by spotting serial dilutions onto GCB with IPTG (c). Experiments were performed in biological triplicates and means and SEM are presented. d Representative immunoblot showing ObgGC levels over time in FA1090 P::obg grown in the presence (+) and absence (−) of IPTG. The samples were collected every hour after back dilution (as indicated), matched by the same OD600 units, and whole cell lysates were probed with anti-ObgGC antisera. e Cultures of FA1090 P::obg grown in the liquid media in presence (+) and absence (−) of IPTG were serially diluted and spotted on GCB with (+) and without (−) the inducer. The 2- and 4-h time points from back dilution are shown
Fig. 5Expression of ObgGC. The growth of FA1090 (a) and ObgGC amounts (b) were examined during regular aerobic conditions in GCBL by measurements of bacterial turbidity (OD600) and immunoblotting analyses of whole cell lysates every hour. The graph shows means with corresponding SEM from biological triplicate experiments. Samples were matched by equivalent OD600 units and representative immunoblots are shown. Immuoblotting with anti-Ng-MIP antisera was used as a loading control. c The immunoblot probed with anti-ObgGC antisera was scanned and subjected to densitometric analysis. To quantify the intensity of the ObgGC protein bands, the volume tool, local background subtraction, and linear regression methods were used. d The expression of ObgGCwas assessed in whole cell lysates derived from GC cultured on GCB aerobically, in iron-limited conditions, in the presence of 7.5 % normal human sera, and anaerobically in the presence of nitrite as a terminal electron acceptor. Immunoblotting analyses with anti-TbpB and anti-AniA antisera were used as controls for iron-depleted [54] and anaerobic [55] growth conditions, respectively. Samples of whole-cell lysates were matched by the same OD600 units (40 or 20 as indicated) with the exception of detection of AniA during anaerobic growth conditions, where 0.375 OD600 units were used
Fig. 6Obg is a primarily cytoplasmic protein that predominantly fractionates together with the 50S ribosomal particles. a Samples of isolated subproteome fractions (as indicated; 15 μg) obtained from wild type FA1090 cultured under regular aerobic laboratory growth conditions were separated in 4-20 % gradient gels and probed with either polyclonal rabbit anti-ObgGC antisera or monoclonal mouse anti-MtrE antibodies. b FA1090 cell lysate was subjected to separation on a 10-47 % step sucrose gradient by ultracentrifugation at 174,000 × g for 4 h and monitored by UV absorbance at 254 nm. The positions of the 30S and 50S ribosomal subunits, the 70S monosomes, and polyribosomes are indicated. The level of ObgGC in the collected fractions was detected by immunoblotting with polyclonal rabbit anti-ObgGC antibodies. A representative polyribosome profile and immunoblot are shown
Fig. 7The polyclonal rabbit anti-ObgGC antibodies cross-react with cell lysates of 36 diverse GC strains. Samples of whole-cell lysates derived from various GC isolates (as indicated) harvested from GCB were matched by equivalent OD600 units and resolved in 4-20 % Tris-glycine precast gels. The proteins were transferred onto nitrocellulose membrane and probed with polyclonal rabbit anti-ObgGC antisera