Ekaterina P. Podolskaya

RelA/NF-kappaB transcription factor associates with alpha-actinin-4.

The NF-kappaB/RelA family of transcription factors regulates inducible transcription of a large number of genes in response to diverse stimuli. Little is known, however, about the location of NF-kappaB in the cytoplasm and the transport mechanism to the nucleus. We found that NF-kappaB is associated with the actin-binding protein alpha-actinin-4. NF-kappaB and alpha-actinin-4 co-localized along actin stress fibers and in membrane lamellae in A431 cells. After a 30-min stimulation with EGF or TNF-alpha, alpha-actinin-4 and p65 were found in the nucleus. Disruption of cytoskeleton by cytochalasin D prior to treatment with TNF-alpha led to increase of p65 nuclear translocation. Antibodies to p65 subunit of NF-kappaB co-immunoprecipitated alpha-actinin-4 from A431 cell lysates and nuclear extracts, but alpha-actinin-1 and beta-actin were not found in the precipitates. Affinity chromatography experiments displayed that p65 and p50 subunits of NF-kappaB can bind to matrix-bound chicken gizzard alpha-actinin. We suggest that the alpha-actinin-4 is important for the NF-kappaB nuclear translocation and its functions inside the nucleus.

Matrix-assisted laser desorption/ionization time-of-flight mass spectrometry of titanium oxide-enriched peptides for detection of aged organophosphorus adducts on human butyrylcholinesterase.

Exposure to nerve agents or organophosphorus (OP) pesticides can have life-threatening effects. Human plasma butyrylcholinesterase (BChE) inactivates these poisons by binding them to Ser198. After hours or days, these OP adducts acquire a negative charge by dealkylation in a process called aging. Our goal was to develop a method for enriching the aged adduct to facilitate detection of exposure. Human BChE inhibited by OP toxicants was incubated for 4 days to 6 years. Peptides produced by digestion with pepsin were enriched by binding to titanium oxide (TiO2) and analyzed by matrix-assisted laser desorption/ionization time-of-flight (MALDI-TOF) mass spectrometry. It was found that with two exceptions, all aged OP adducts in peptide FGES198AGAAS were enriched by binding to Titansphere tips. Cresyl saligenin phosphate yielded two types of aged adduct, cresylphosphate and phosphate, but only the phosphate adduct bound to Titansphere. The nerve agent VR yielded no aged adduct, supporting crystal structure findings that the VR adduct on BChE does not age. The irreversible nature of aged OP adducts was demonstrated by the finding that after 6 years at room temperature in sterile pH 7.0 buffer, the adducts were still detectable. It was concluded that TiO2 microcolumns can be used to enrich aged OP-modified BChE peptide.

RelA/NF-κB transcription factor associates with α-actinin-4

The NF-kappaB/RelA family of transcription factors regulates inducible transcription of a large number of genes in response to diverse stimuli. Little is known, however, about the location of NF-kappaB in the cytoplasm and the transport mechanism to the nucleus. We found that NF-kappaB is associated with the actin-binding protein alpha-actinin-4. NF-kappaB and alpha-actinin-4 co-localized along actin stress fibers and in membrane lamellae in A431 cells. After a 30-min stimulation with EGF or TNF-alpha, alpha-actinin-4 and p65 were found in the nucleus. Disruption of cytoskeleton by cytochalasin D prior to treatment with TNF-alpha led to increase of p65 nuclear translocation. Antibodies to p65 subunit of NF-kappaB co-immunoprecipitated alpha-actinin-4 from A431 cell lysates and nuclear extracts, but alpha-actinin-1 and beta-actin were not found in the precipitates. Affinity chromatography experiments displayed that p65 and p50 subunits of NF-kappaB can bind to matrix-bound chicken gizzard alpha-actinin. We suggest that the alpha-actinin-4 is important for the NF-kappaB nuclear translocation and its functions inside the nucleus.

Immobilized metal affinity chromatography on collapsed Langmuir-Blodgett iron(III) stearate films and iron(III) oxide nanoparticles for bottom-up phosphoproteomics.

Phosphorylation is the enzymatic reaction of site-specific phosphate transfer from energy-rich donors to the side chains of serine, threonine, tyrosine, and histidine residues in proteins. In living cells, reversible phosphorylation underlies a universal mechanism of intracellular signal transduction. In this context, analysis of the phosphoproteome is a prerequisite to better understand the cellular regulatory networks. Conventionally, due to the low contents of signaling proteins, selective enrichment of proteolytic phosphopeptides by immobilized metal affinity chromatography (IMAC) is performed prior to their LC-MS or -MS/MS analysis. Unfortunately, this technique still suffers from low selectivity and compromised analyte recoveries. To overcome these limitations, we propose IMAC systems comprising stationary phases based on collapsed Langmuir-Blodgett films of iron(III) stearate (FF) or iron(III) oxide nanoparticles (FO) and mobile phases relying on ammonia, piperidine and heptadecafluorooctanesulfonic acid (PFOS). Experiments with model phosphopeptides and phosphoprotein tryptic digests showed superior binding capacity, selectivity and recovery for both systems in comparison to the existing commercial analogs. As evidenced by LC-MS/MS analysis of the HeLa phosphoproteome, these features of the phases resulted in increased phosphoproteome coverage in comparison to the analogous commercially available phases, indicating that our IMAC protocol is a promising chromatographic tool for in-depth phosphoproteomic research.

PHOS-select iron affinity beads enrich peptides for the detection of organophosphorus adducts on albumin.

Albumin is covalently modified by organophosphorus toxicants (OP) on tyrosine 411, but less than 1% of albumin is modified in humans by lethal OP doses that inhibit 95% of plasma butyrylcholinesterase. A method that enriches OP-modified albumin peptides could aid analysis of low dose exposures. Soman or chlorpyrifos oxon treated human plasma was digested with pepsin. Albumin peptides were enriched by binding to Fe(3+) beads at pH 11 and eluted with pH 2.6 buffer. Similarly, mouse and guinea pig albumin modified by chlorpyrifos oxon were digested with pepsin and enriched by binding to Fe(3+) beads. Peptides were identified by MALDI-TOF/TOF mass spectrometry. PHOS-select iron affinity beads specifically enriched albumin peptides VRY411TKKVPQVST and LVRY411TKKVPQVST in a pepsin digest of human plasma. The unmodified as well as OP-modified peptides bound to the beads. The binding capacity of 500 μL of beads was the pepsin digest of 2.1 μL of human plasma. The limit of detection was 0.2% of OP-modified albumin peptide in 0.43 μL of plasma. Enrichment of OP-modified albumin peptides by binding to Fe(3+) beads is a method with potential application to diagnosis of OP pesticide and nerve agent exposure in humans, mice, and guinea pigs.

CHAPTER 7 – Russian VX

Publisher Summary This chapter describes the chemistry, analysis, toxicity, monitoring, and regulatory hygiene, and therapy of Russian VX nerve agent. One of the most abundant and most toxic chemical warfare agents in the chemical arsenals of the USA and Russia is VX and Russian VX respectively, whose development in the middle of the 20th century signified the peak of warfare chemistry. The arbitrary name VX relates to a group of O, S-diesters of methylphosphonic acid ROPO(CH3)S(CH2)2N(R1)2. V-gases are low-volatile liquids with high boiling points and, therefore, they are much more persistent than higher volatility organophosphorus (OP) agents of the G-series, such as sarin, soman, or tabun. V-series compounds are more toxic than OP nerve agents of the G-series. Poisoning occurs irrespective of route of exposure; specifically inhalation, ingestion of vaporous and liquid agents through intact or injured skin or eye mucosa, and on contact with contaminated surfaces. The most effective antidote complex for treating acute intoxications with RVX consists of an antagonist of M-cholinoceptors, a reversible inhibitor of cholinesterase, and a reactivator of cholinesterase. In addition, anticonvulsants can be used in cases where convulsions occur.

Mass-spectrometric analysis of proteasome subunits exhibiting endoribonuclease activity

Proteasomes function as the main nonlysosomal machinery of intracellular proteolysis and are involved in the regulation of the majority of important cellular processes. Despite the considerable progress that has been made in understanding the functioning of proteasomes, some issues (in particular, the RNase activity of these ribonucleoprotein complexes and its regulation) remain poorly investigated. In this study, we found to several proteins with electrophoretic mobility that corresponds to that of 20S subunits of the core proteasome complex exhibit endoribonuclease activity with respect to the sense and antisense sequences of the c-myc mRNA 3′-UTR. Mass-spectrometric analysis of tryptic hydrolysates of these proteins showed that the samples contained 20S proteasome subunits—α1 (PSMA6), α5 (PSMA5), α6 (PSMA1), and α7 (PSMA3). A number of new phosphorylation sites of α1 (PSMA6) and α7 (PSMA3) subunits were found, and a form of α5 (PSMA5) subunit with a deletion of 20 N-terminal amino-acid residues was identified. The observed differences in the manifestation of endonuclease activity by individual subunits are apparently due to posttranslational modifications of these proteins (in particular, phosphorylation). It was shown that the specificity of RNase activity changes upon proteasome dephosphorylation and under the influence of Ca2+ and Mg2+ cations. It is concluded that posttranslational modifications of proteasome subunits affect the specificity of their RNase activity.

Ni-functionalized submicron mesoporous silica particles as a sorbent for metal affinity chromatography

In this research, a novel IMAC sorbent with high specificity for chlorine-containing compounds was developed. Ni-functionalized monodisperse spherical mesoporous silica particles of 500±25nm diameter were synthesized and their metal affinity properties were studied with the use of diclofenac as the model substance. The particles were aggregatively stable in the pH range of 3-12. The sorbent demonstrated a high adsorption capacity (0.60±0.06μg of DCF per 1mg of the sorbent) and high adsorption/desorption rate (20 and 5min was enough for the sorbent saturation and desorption of DCF, correspondingly). A mixture of eluents with addition of PFOS providing the almost complete recovery (98%) of diclofenac was first proposed. The monodispersity and the high sedimentation and aggregative stability of the particles provide the formation of a stable hydrosol even under ultrasound treatment which makes the mSiO2/Ni particles suitable for batch chromatography.

Stability and Structural Transitions in Crystal Lattices

Theadvanceinnanotechnologyhasleadtonecessitytodeterminestrength properties of crystal structures. Stability of a structure under finite deformations is closely connected with its strength. In this work stability of plane triangular (single atomic layer of FCC and HCP) and FCC lattices under finite strain is investigated. Analysisandmodelingbasedondiscreteatomisticmethodsisproposed.Themedium is represented by a set of particles which interact by a pair force central potential, e.g. Lennard-Jones and Morse. Direct tensor calculus is used. Dynamic stability criterion is established: frequency of elastic waves is required to be real for any real wave vector. The considered approach allows to describe structural transitions in solids on the base of stability investigation of pre-strained crystal lattices. The results of direct MD simulation do not contradict the results of the calculations.

Analysis of Nuclear Protein Complexes Comprising a -Actinin-4 by 2D-Electrophoresis and Mass Spectrometry

Actin-binding protein α-actinin-4 is a member of the spectrin superfamily; it is located in both the cytoplasm and nucleus. However, nuclear functions of α-actinin-4 are still not clear. In this study, we analyzed the composition of nuclear protein complexes associated with α-actinin-4 in A431 cells. Using 2D electrophoresis, we found that about 50 different proteins may be associated with nuclear α-actinin-4. Major proteins of these complexes were analyzed by mass spectrometry and the following proteins have been identified: β-actin, α- and β-tubulins, ribonucleoprotein A2/B1 (regulates splicing and is associated with β-actin), peroxiredoxin-1 (involved in oxidative stress), and glycolytic enzyme D-3-phosphoglycerate dehydrogenase. The detection of these proteins in nuclear complexes with α-actinin-4 may suggest that α-actinin-4 is implicated in transcription and splicing. The presence of β-actin in these complexes was confirmed by tandem mass spectrometry (MALDI-TOF-TOF). The immunoprecipitation of nuclear proteins with antibodies against α-tubulin proved the association of α-actinin-4 with α-tubulin in the protein complex. Nuclear α-actinin-4 consists of a 105-kDa, full-size isoform and two truncated isoforms of 65 and 75 kDa; only truncated isoforms have been found in nuclear complexes with α-tubulin. These data suggest that α-actinin-4 is associated with a number of various nuclear protein complexes that may be able to carry out different functions in the cell nucleus.