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At least 109 records · Page 6

Mutants of Cytochrome P450 Reductase Lacking Either Gly-141 or Gly-143 Destabilize Its FMN Semiquinone

NADPH-cytochrome P450 oxidoreductase transfers electrons from NADPH to cytochromes P450 via its FAD and FMN. To understand the biochemical and structural basis of electron transfer from FMN-hydroquinone to its partners, three deletion mutants in a conserved loop near the FMN were characterized. Comparison of oxidized and reduced wild type and mutant structures reveals that the basis for the air stability of the neutral blue semiquinone is protonation of the flavin N5 and strong H-bond formation with the Gly-141 carbonyl. Further, the ΔGly-143 protein had moderately decreased activity with cytochrome P450 and cytochrome c. It formed a flexible loop, which transiently interacts with the flavin N5, resulting in the generation of both an unstable neutral blue semiquinone and hydroquinone. The ΔGly-141 and ΔG141/E142N mutants were inactive with cytochrome P450 but fully active in reducing cytochrome c. In the ΔGly-141 mutants, the backbone amide of Glu/Asn-142 forms an H-bond to the N5 of the oxidized flavin, which leads to formation of an unstable red anionic semiquinone with a more negative potential than the hydroquinone. The semiquinone of ΔG141/E142N was slightly more stable than that of ΔGly-141, consistent with its crystallographically demonstrated more rigid loop. Nonetheless, both ΔGly-141 red semiquinones were less stable than those of the corresponding loop in cytochrome P450 BM3 and the neuronal NOS mutant (ΔGly-810). Our results indicate that the catalytic activity of cytochrome P450 oxidoreductase is a function of the length, sequence, and flexibility of the 140s loop and illustrate the sophisticated variety of biochemical mechanisms employed in fine-tuning its redox properties and function.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Transition-state destabilization reveals how human DNA polymerase β proceeds across the chemically unstable lesion N7-methylguanine

N7-Methyl-2 -deoxyguanosine (m7dG) is the predominant lesion formed by methylating agents. A systematic investigation on the effect of m7dG on DNA replication has been difficult due to the chemical instability of m7dG. To gain insights into the m7dG effect, we employed a 2 -fluorine-mediated transitionstate destabilzation strategy. Specifically, we determined kinetic parameters for dCTP insertion opposite a chemically stable m7dG analogue, 2 -fluorom7dG (Fm7dG), by human DNA polymerase (pol) and solved three X-ray structures of pol in complex with the templating Fm7dG paired with incoming dCTP or dTTP analogues. The kinetic studies reveal that the templating Fm7dG slows pol catalysis ~300-fold, suggesting that m7dG in genomic DNA may impede replication by some DNA polymerases. The structural analysis reveals that Fm7dG forms a canonical Watson–Crick base pair with dCTP, but metal ion coordination is suboptimal for catalysis in the pol-Fm7dG:dCTP complex, which partially explains the slow insertion of dCTP opposite Fm7dG by pol. In addition, the pol-Fm7dG:dTTP structure shows open protein conformations and staggered base pair conformations, indicating that N7- methylation of dG does not promote a promutagenic replication. Overall, the first systematic studies on the effect of m7dG on DNA replication reveal that pol catalysis across m7dG is slow, yet highly accurate.

59 BASIC BIOLOGICAL SCIENCES↗

Destabilization of the PCNA trimer mediated by its interaction with the NEIL1 DNA glycosylase

The base excision repair (BER) pathway repairs oxidized lesions in the DNA that result from reactive oxygen species generated in cells. If left unrepaired, these damaged DNA bases can disrupt cellular processes such as replication. NEIL1 is one of the 11 human DNA glycosylases that catalyze the first step of the BER pathway, i.e. recognition and excision of DNA lesions. NEIL1 interacts with essential replication proteins such as the ring-shaped homotrimeric proliferating cellular nuclear antigen (PCNA). We isolated a complex formed between NEIL1 and PCNA (±DNA) using size exclusion chromatography (SEC). This interaction was confirmed using native gel electrophoresis and mass spectrometry. Stokes radii measured by SEC hinted that PCNA in complex with NEIL1 (±DNA) was no longer a trimer. Height measurements and images obtained by atomic force microscopy also demonstrated the dissociation of the PCNA homotrimer in the presence of NEIL1 and DNA, while small-angle X-ray scattering analysis confirmed the NEIL1 mediated PCNA trimer dissociation and formation of a 1:1:1 NEIL1-DNA-PCNA(monomer) complex. Furthermore, ab initio shape reconstruction provides insights into the solution structure of this previously unreported complex. Together, these data point to a potential mechanistic switch between replication and BER.

59 BASIC BIOLOGICAL SCIENCES↗

Climatic warming destabilizes forest ant communities

How will ecological communities change in response to climate warming? Direct effects of temperature and indirect cascading effects of species interactions are already altering the structure of local communities, but the dynamics of community change are still poorly understood. We explore the cumulative effects of warming on the dynamics and turnover of forest ant communities that were warmed as part of a 5-year climate manipulation experiment at two sites in eastern North America. At the community level, warming consistently increased occupancy of nests and decreased extinction and nest abandonment. This consistency was largely driven by strong responses of a subset of thermophilic species at each site. As colonies of thermophilic species persisted in nests for longer periods of time under warmer temperatures, turnover was diminished, and species interactions were likely altered. We found that dynamical (Lyapunov) community stability decreased with warming both within and between sites. These results refute null expectations of simple temperature-driven increases in the activity and movement of thermophilic ectotherms. The reduction in stability under warming contrasts with the findings of previous studies that suggest resilience of species interactions to experimental and natural warming. In the face of warmer, no-analog climates, communities of the future may become increasingly fragile and unstable.

54 ENVIRONMENTAL SCIENCES↗

Fuzzy Cognitive Model for Identification of Destabilizing Factors

A fuzzy cognitive model of industrial emergencies is proposed. The model permits analysis of possible measures for risk reduction and the elimination of emergencies and accidents at industrial enterprises. The relationships among and within groups of concepts in the fuzzy cognitive model are established. The applicability of the new fuzzy cognitive model is discussed.

42 ENGINEERING↗

Vibration and destabilizing effects of floating ring seals in compressors

Operating experience on a compressor commissioned 12 years ago has presented an interesting history of sporadic increases in shaft vibration. Initial operation was satisfactory with low levels of vibration. However, after some time the shaft vibration level increased to several mils. Initially this was believed to be due to rotor unbalance from deposits formed in the passages due to process upsets. After cleaning up the rotor, operation was again increased. It was then found that the rotor vibration was primarily subsynchronous. Further investigation revealed that the original seal design was subject to wear and was no longer properly pressure balanced. A modified seal design was installed and it has operated successfully for the past six years.

Emerick, M. F.↗

Destabilization of a 650 km chemical boundary layer and its bearing on the evolution of the continental crust

A mechanism for the production of a chemical change in the mantle, from primordial silicate compositions above the 650 km discontinuity to differentiated compositions below, is reviewed. Some consequences of this are the stabilization of two layer convection with a temperature contrast between the anhydrous mantle solidus and the geotherm which, at 650 km depth, is lower than any other location in the mantle. With thermal contributions from the concentration of the heat producing elements U, Th and K below the 650 km mantle boundary layer and the higher geotherms in the past, widespread or catastrophic melting may have taken place at this location. An episodic breach of this boundary layer by extensive heat and mass transport may have periodically destroyed any simple two-layer convection geometry in the mantle. Such episodic injections of mass and energy into the upper mantle from below may have been the mechanism responsible for episodes of enhanced surface tectonism and thermal activity which appear to be recorded in apparent polar wandering paths and radiometric ages of continental rocks.

Herzberg, C. T.↗

Advective forecasts of VAS imagery for use in anticipating convective destabilization

Wind field forecasts, based on data from the Visible Atmospheric Sounder (VAS) instrument on board the most recent GOES satellite, are described. The forecasts were used to generate a series of water vapor images for the Central U.S. according to an isentropic prediction scheme. The ability of VAS imagery to detect regions of mesoscale convective instability was contrasted with data from a 9-12 hr advective forecast and the results are discussed. It is shown that the VAS imagery was free from masking by convective outflows and lends itself to repeated applications for updating throughout the day. The incorporation of surface data into the VAS forecast is recommended in order to identify areas of persistent moisture convergence. Some examples of the VAS imagery are provided.

Petersen, R. A.↗

The effects of stabilizing and destabilizing longitudinal curvature on the structure of turbulent, two-stream mixing layers

The construction and development of the multi-component traversing system and associated control hardware and software are presented. A hydrogen bubble/laser sheet flow visualization technique was developed to visually study the characteristics of the mixing layers. With this technique large-scale rollers arising from the Taylor-Gortler instability and its interaction with the primary Kelvin-Helmholtz structures can be studied.

Plesniak, Michael W.↗

Destabilizing effects of visual environment motions simulating eye movements or head movements

In the present paper, we explore effects on the human of exposure to a visual virtual environment which has been enslaved to simulate the human user's head movements or eye movements. Specifically, we have studied the capacity of our experimental subjects to maintain stable spatial orientation in the context of moving their entire visible surroundings by using the parameters of the subjects' natural movements. Our index of the subjects' spatial orientation was the extent of involuntary sways of the body while attempting to stand still, as measured by translations and rotations of the head. We also observed, informally, their symptoms of motion sickness.

White, Keith D.↗