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At least 397 records · Page 22
All sourcesNASA NTRSDOE OSTI
DOE OSTI2023

Thermomechanical analysis and modeling of involute-shaped fuel plates using the Cheverton–Kelley experiments for the High Flux Isotope Reactor

Three research reactors with involute-shaped fuel plates are pursuing conversion from highly enriched uranium to low-enriched uranium fuel. Various core design and safety evaluation studies are essential to assess the feasibility of the conversion. The use of 3D computational multiphysics codes is being explored in these analyses and therefore they must undergo a thorough evaluation and quality assurance process due to their potential impact on nuclear safety. Here, the Cheverton and Kelley physical tests performed in the late 1960s to investigate the deflections of HFIR’s outer plate under uniform pressure and temperature fields are simulated by employing commercially available computational codes, with the goals to (1) verify and validate the models and numerical solvers implemented in the codes for thermomechanical analysis of involute reactor plates and (2) to develop a benchmark computational test to evaluate future versions of existing software or newly developed computational codes. The results of the simulations showed good agreement with each other as well as against the Cheverton–Kelley experimental data. Some minor deviations were observed for a few multiphysics cases and their potential origins and impact on the analysis results is investigated in the paper. The validated models increase the confidence in using multiphysics codes to evaluate existing or new LEU designs.

21 SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLANTS↗
DOE OSTI2019

Jupiter: A Proposed Benchmark for Lead Void Worth with Plutonium

In the summer of 2017, a series of measurements were performed at the National Criticality Experiments Research Center (NCERC) in collaboration with the Japanese Atomic Energy Agency (JAEA) to measure the reactivity worth of voids in an array of lead and plutonium. This experiment, called Jupiter, measured multiple configurations of an array of aluminum boxes containing plutonium, aluminum, and lead plates. For some configurations, a selection of the lead interstitial plates were swapped with aluminum spacer frames to create “voids” in the lead interstitial material. Comparing the excess reactivity of the systems provides an empirical value of the lead void reactivity worth. These measurements were part of a larger collaboration to measure lead void reactivity worth with multiple nuclear material types and enrichments. This included other measurement series with both highly-enriched uranium (HEU), and a mixture of HEU and natural uranium to simulate low-enriched uranium (LEU). These data sets will be useful to the JAEA for a potential lead-bismuth cooled accelerator driven system. Additionally, there are not very many benchmarks in the International Criticality Safety Benchmark Evaluation Project (ICSBEP) handbook sensitive to lead cross sections. Given that lead is widely used as a radiation shield and is part of new reactor designs, having more benchmarks in the ICSBEP handbook to better support cross section validation is important. Additional integral experiments could also aid in determining whether improvements have been made in new lead cross section evaluations. A benchmark evaluation for this experiment is being proposed in order to help fulfill these needs. Such evaluations contain both measured data, results from detailed transport code models, and analyses of the uncertainties associated with each. Examples of these uncertainties include the uncertainty in the measured excess reactivity, the composition of components, or their positioning within the model. This means it is easier to make comparisons between the measured and simulated data and better understand where improvements can be made to nuclear data.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2014

Neutron radiography (NRAD) reactor 64-element core upgrade

The neutron radiography (NRAD) reactor is a 250 kW TRIGA (registered) (Training, Research, Isotopes, General Atomics) Mark II , tank-type research reactor currently located in the basement, below the main hot cell, of the Hot Fuel Examination Facility (HFEF) at the Idaho National Laboratory (INL). It is equipped with two beam tubes with separate radiography stations for the performance of neutron radiography irradiation on small test components. The interim critical configuration developed during the core upgrade, which contains only 62 fuel elements, has been evaluated as an acceptable benchmark experiment. The final 64-fuel-element operational core configuration of the NRAD LEU TRIGA reactor has also been evaluated as an acceptable benchmark experiment. Calculated eigenvalues differ significantly (approximately ±1%) from the benchmark eigenvalue and have demonstrated sensitivity to the thermal scattering treatment of hydrogen in the U-Er-Zr-H fuel.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗
DOE OSTI2017

Facilitation of the USHPRR Program MP-1 Shipments

This report describes the activities necessary to support the numerous transportation tasks involved with the successful completion of the mini-plate MP-1 and future MP experiments for the U.S. High Performance Research Reactor HEU to LEU conversion program. It includes information about the general activities necessary to implement equipment, operational processes, and safety basis changes required at the shipping facility and receipt facilities to support the shipments.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗
DOE OSTI2021

Stochastic Approaches for Calculating and Aggregating Detection Probabilities for Nuclear Material Diversion

The authors built and tested a stochastic simulation to estimate achieved detection probabilities (DPs) on a stratum basis, over a tailorable range of diverted amounts from 0 to 2 significant quantities (SQ), using typical International Atomic Energy Agency (IAEA) inspection data: i.e., SQ in stratum, number of items, number of gross/partial/bias defect measurements conducted, and realistic relative standard deviation (RSD) values for typical IAEA verification measurements. For bulk strata, the model calculates achieved DP at 0.01 SQ diversion increments; for item strata, the model calculates DP using the smallest realistic diversion increment (e.g., a plate, pin, or coupon). After successfully benchmarking against IAEA deterministic models, the simulation was used to test the sensitivity of DP to certain standard assumptions and selected input parameters. First, the equal defect assumption was tested; the results suggest significant complexity in the effectiveness of partial defect measurements. Next, the authors explored the sensitivity of DP to the assumed RSD of attribute tests. Then, the authors compared non-normal models for instrument performance (e.g., logistic, step, or arbitrary functions) to the typical results from a normal distribution (characterized by RSD). This last comparison was supplemented with experimentally derived performance data for an HM-5 gamma spectrometer. The HM-5 was used to make enrichment measurements on both LEU and HEU MTR fuel elements as plates were removed, and the results fit with logistic and step curves and applied in the simulation. These stochastic DP results were compared to DP estimates from a deterministic model assuming a normal curve and typical RSD, yielding insights that could improve effectiveness in the field. These early results illustrate the potential of stochastic models to better understand achieved DP and to improve safeguards effectiveness.

98 NUCLEAR DISARMAMENT, SAFEGUARDS, AND PHYSICAL P↗
DOE OSTI2016

STATUS OF TRISO FUEL IRRADIATIONS IN THE ADVANCED TEST REACTOR SUPPORTING HIGH-TEMPERATURE GAS-COOLED REACTOR DESIGNS

The United States Department of Energy’s Advanced Reactor Technologies (ART) Advanced Gas Reactor (AGR) Fuel Development and Qualification Program is irradiating up to seven low enriched uranium (LEU) tri-isotopic (TRISO) particle fuel (in compact form) experiments in the Advanced Test Reactor (ATR) located at the Idaho National Laboratory (INL). These irradiations and fuel development are being accomplished to support development of the next generation reactors in the United States. The experiments will be irradiated over the next several years to demonstrate and qualify new TRISO coated particle fuel for use in high temperature gas reactors. The goals of the experiments are to provide irradiation performance data to support fuel process development, to qualify fuel for normal operating conditions, to support development and validation of fuel performance and fission product transport models and codes, and to provide irradiated fuel and materials for post irradiation examination (PIE) and safety testing. The experiments, which will each consist of several independent capsules, will be irradiated in an inert sweep gas atmosphere with individual on-line temperature monitoring and control of each capsule. The sweep gas will also have on-line fission product monitoring on its effluent to track performance of the fuel in each individual capsule during irradiation. The first experiment (designated AGR-1) started irradiation in December 2006 and was completed in November 2009. The second experiment (AGR-2) started irradiation in June 2010 and completed in October 2013. The third and fourth experiments have been combined into a single experiment designated (AGR-3/4), which started its irradiation in December 2011 and completed in April 2014. Since the purpose of this experiment was to provide data on fission product migration and retention in the NGNP reactor, the design of this experiment was significantly different from the first two experiments, though the control and monitoring systems are very similar. The final experiment, AGR-5/6/7, is scheduled to begin irradiation in early summer 2017.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗
DOE OSTI2023

The N‐terminal intrinsically disordered region of Ncb5or docks with the cytochrome b 5 core to form a helical motif that is of ancient origin

Abstract NADH cytochromeb 5 oxidoreductase (Ncb5or) is a cytosolic ferric reductase implicated in diabetes and neurological conditions. Ncb5or comprises cytochromeb 5 (b 5 ) and cytochromeb 5 reductase (b 5 R) domains separated by a CHORD‐Sgt1 (CS) linker domain. Ncb5or redox activity depends on proper inter‐domain interactions to mediate electron transfer from NADH or NADPH via FAD to heme. While full‐length human Ncb5or has proven resistant to crystallization, we have succeeded in obtaining high‐resolution atomic structures of theb 5 domain and a construct containing the CS andb 5 R domains (CS/b 5 R). Ncb5or also contains an N‐terminal intrinsically disordered region of 50 residues that has no homologs in other protein families in animals but features a distinctive, conserved L 34 MDWIRL 40 motif also present in reduced lateral root formation (RLF) protein in rice and increased recombination center 21 in baker's yeast, all attaching to ab 5 domain. After unsuccessful attempts at crystallizing a human Ncb5or construct comprising the N‐terminal region naturally fused to theb 5 domain, we were able to obtain a high‐resolution atomic structure of a recombinant rice RLF construct corresponding to residues 25–129 of human Ncb5or (52% sequence identity; 74% similarity). The structure reveals Trp 120 (corresponding to invariant Trp 37 in Ncb5or) to be part of an 11‐residue α‐helix (S 116 QMDWLKLTRT 126 ) packing against two of the four helices in theb 5 domain that surround heme (α2 and α5). The Trp 120 side chain forms a network of interactions with the side chains of four highly conserved residues corresponding to Tyr 85 and Tyr 88 (α2), Cys 124 (α5), and Leu 47 in Ncb5or. Circular dichroism measurements of human Ncb5or fragments further support a key role of Trp 37 in nucleating the formation of the N‐terminal helix, whose location in the N/b 5 module suggests a role in regulating the function of this multi‐domain redox enzyme. This study revealed for the first time an ancient origin of a helical motif in the N/b 5 module as reflected by its existence in a class of cytochromeb 5 proteins from three kingdoms among eukaryotes.

Biochemistry & Molecular Biology↗
DOE OSTI2015

Easy parallel screening of reagent stability, quality control, and metrology in solid phase peptide synthesis (SPPS) and peptide couplings for microarrays

Evaluating the stability of coupling reagents, quality control (QC), and surface functionalization metrology are all critical to the production of high quality peptide microarrays. We describe a broadly applicable screening technique for evaluating the fidelity of solid phase peptide synthesis (SPPS), the stability of activation/coupling reagents, and a microarray surface metrology tool. This technique was used to assess the stability of the activation reagent 1-{[1-(Cyano-2-ethoxy-2-oxo-ethylidenaminooxy)dimethylamino-morpholinomethylene]}methaneaminiumHexafluorophosphate (COMU) (Sigma-Aldrich, St. Louis, MO, USA) by SPPS of Leu-Enkephalin (YGGFL) or the coupling of commercially synthesized YGGFL peptides to (3-aminopropyl)triethyoxysilane-modified glass surfaces. Coupling efficiency was quantitated by fluorescence signaling based on immunoreactivity of the YGGFL motif. It was concluded that COMU solutions should be prepared fresh and used within 5 h when stored at ~23 °C and not beyond 24 h if stored refrigerated, both in closed containers. Caveats to gauging COMU stability by absorption spectroscopy are discussed. Commercial YGGFL peptides needed independent QC, due to immunoreactivity variations for the same sequence synthesized by different vendors. This technique is useful in evaluating the stability of other activation/coupling reagents besides COMU and as a metrology tool for SPPS and peptide microarrays.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2018

Blood Pressure Changes After Exposures Increasing Angiotensin-Converting Enzyme Activity and After Its Normalization with Dihydroquercetin in Male Wistar Rats

Changes in BP and HR were assessed after exposures increasing activity of angiotensin-converting enzyme: ionizing radiation, NO synthase inhibitor (L-NAME), and dexamethasone. Effects of dihydroquercetin and angiotensin-converting enzyme inhibitor enalapril on activity of this enzyme, BP, and HR were also evaluated under these exposures. Wistar male rats were subjected to X-ray irradiation in a dose of 2.5 Gy. Angiotensin-converting enzyme activity in the aorta sections was determined by Hip-His-Leu hydrolysis. BP and HR were recorded using a non-invasive tail-cuff method and PowerLab 8/35 software. BP and HR were not altered with the increase in activity of angiotensin-converting enzyme after irradiation. In case of prolonged (7 days) treatment with NO synthase inhibitor and dexamethasone, the increase in enzyme activity was accompanied by elevation of BP and, in the case of NO synthase inhibitor, HR reduction. Dihydroquercetin normalized the enzyme activity and lowered BP, but not to the normal level. Enalapril normalized BP, increased by NO synthase inhibitor solution intake; at the same time, the angiotensinconverting enzyme activity decreased more than 2-fold in comparison with the normal.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2014

Development and validation of capabilities to measure thermal properties of layered monolithic U-Mo alloy plate-type fuel

The uranium-molybdenum (U-Mo) alloy in a monolithic form has been proposed as one fuel design capable of converting some of the world’s highest power research reactors from the use of high enriched uranium (HEU) to low enriched uranium (LEU). One aspect of the fuel development and qualification process is to demonstrate appropriate understanding of thermal conductivity behavior of the fuel system as a function of temperature and expected irradiation conditions. The purpose of this paper is to verify and validate the functionality of equipment methods installed in hot cells for eventual measurements on irradiated uranium-molybdenum (U-Mo) monolithic fuel specimens, procedures to operate the equipment, and models to extract the desired thermal properties. The results presented here demonstrate the adequacy of the equipment, procedures and models that have been developed for this purpose based on measurements conducted on surrogate depleted uranium-molybdenum (DU-Mo) alloy samples containing a zirconium diffusion barrier and clad in aluminum alloy 6061 (AA6061). The results are in excellent agreement with thermal property data reported in the literature for similar U-Mo alloys as a function of temperature.

multi-layer↗
DOE OSTI2019

Substance P in Solution: Trans-to-Cis Configurational Changes of Penultimate Prolines Initiate Non-enzymatic Peptide Bond Cleavages

We report ion mobility spectrometry and mass spectrometry studies of the non-enzymatic step-by-step degradation of substance P (subP), an 11-residue neuropeptide, with the sequence Arg{sup 1}-Pro{sup 2}-Lys{sup 3}-Pro{sup 4}-Gln{sup 5}-Gln{sup 6}-Phe{sup 7}-Phe{sup 8}-Gly{sup 9}-Leu{sup 10}-Met{sup 11}-NH{sub 2}, in ethanol. At elevated solution temperatures (55 to 75 °C), several reactions are observed, including a protonation event, i.e., [subP+2H]{sup 2+} + H{sup +} → [subP+3H]{sup 3+}, that appears to be regulated by a configurational change and two sequential bond cleavages (the Pro{sup 2}-Lys{sup 3} peptide bond is cleaved to form the smaller nonapeptide Lys{sup 3}-Met{sup 11}-NH{sub 2} [subP{sub (3–11)}], and subsequently, subP{sub (3–11)} is cleaved at the Pro{sup 4}-Gln{sup 5} peptide bond to yield the heptapeptide Gln{sup 5}-Met{sup 11}-NH{sub 2} [subP{sub (5–11)}]). Each of the product peptides [subP{sub (3–11)} and subP{sub (5–11)}] is accompanied by a complementary diketopiperazine (DKP): cyclo-Arg{sup 1}-Pro{sup 2} (cRP) for the first cleavage, and cyclo-Lys{sup 3}-Pro{sup 4} (cKP) for the second. Insight about the mechanism of degradation is obtained by comparing kinetics calculations of trial model mechanisms with experimental data. The best model of our experimental data indicates that the initial cleavage of subP is regulated by a conformational change, likely a trans→cis isomerization of the Arg{sup 1}-Pro{sup 2} peptide bond. The subP{sub (3–11)} product has a long lifetime (t{sub 1/2} ~ 30 h at 55 °C) and appears to transition through several structural intermediates prior to dissociation, suggesting that subP{sub (3–11)} is initially formed with a Lys{sup 3}-trans-Pro{sup 4} peptide bond configuration and that slow trans→cis isomerization regulates the second bond cleavage event as well. From these data and our model mechanisms, we obtain transition state thermochemistry ranging from ΔH{sup ‡} = 41 to 85 kJ mol{sup −1} and ΔS{sup ‡} = − 43 to – 157 J mol{sup −1} K{sup −1} for each step in the reaction. .

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2022

A mutagenic analysis of NahE, a hydratase-aldolase in the naphthalene degradative pathway

NahE is a hydratase-aldolase that converts o-substituted trans-benzylidenepyruvates (H, OH, or CO 2 - ) to benzaldehyde, salicylaldehyde, or 2-carboxybenzaldehyde, respectively, and pyruvate. The enzyme is in a bacterial degradative pathway for naphthalene, which is a toxic and persistent environmental contaminant. Sequence, crystallographic, and mutagenic analysis identified the enzyme as a member of the N-acetylneuraminate lyase (NAL) subgroup in the aldolase superfamily. As such, it has a conserved lysine (Lys183) and tyrosine (Tyr155), for Schiff base formation, as well as a GXXGE motif for binding of the pyruvoyl carboxylate group. A crystal structure of the selenomethionine derivative of NahE shows these active site elements along with nearby residues that might be involved in the mechanism and/or specificity. Mutations of five active site amino acids (Thr65, Trp128, Tyr155, Asn157, and Asn281) were constructed and kinetic parameters measured in order to assess the effect(s) on catalysis. Here, the results show that the two Trp128 mutants (Phe and Tyr) have the least effect on catalysis, whereas amino acids with bulky side chains at Thr65 (Val) and Asn281 (Leu) have the greatest effect. Changing Tyr155 to Phe and Asn157 to Ala also hinders catalysis, and the effects fall in between these extremes. These observations are put into a structural context using a crystal structure of the Schiff base of the reaction intermediate. Trapping experiments with substrate, Na(CN)BH 3 , and wild type enzyme and selected mutants mostly paralleled the kinetic analysis, and identified two salicylaldehyde-modified lysines: the active site lysine (Lys183) and one outside the active site (Lys279). The latter could be responsible for the observed inhibition of NahE by salicylaldehyde. Together, the results provide new insights into the NahE-catalyzed reaction.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2019

Deflection predictions of involute-shaped fuel plates using a fully-coupled numerical approach

This paper describes the modeling and simulation of fluid structure interactions (FSI) of involute-shaped fuel plates used in nuclear research reactors. We believe this to be the first time that this type of application is described in the literature using a fully-coupled, and monolithic, finite element approach. The simulations are validated against plate deflection data for the conceptual design of the Advanced Neutron Source Reactor (ANSR), which was envisioned to be the world’s most powerful nuclear research reactor for neutron scattering and other applications, but was ultimately never completed. The high performance of the ANSR creates a bounding envelope for involute-shaped research reactors such as that used in the High Flux Isotope Reactor (HFIR) at the Oak Ridge National Laboratory (ORNL) which is undergoing research for the conversion from highly-enriched uranium (HEU) to low-enriched uranium (LEU) fuel. As such, the findings from the present FSI analyses carried out herein for the ANSR plates provide good guidelines and inform designers what should be expected for the next generation of plates in the HFIR. Furthermore it is shown herein that the current approach can accurately capture the leading-edge deflections of the involute-shaped plates and simulations can predict the ‘S-shaped’ deflection of the first mode instilling confidence in the methodology.

42 ENGINEERING↗
DOE OSTI2024

Two pathways to understanding electron transfer in reaction centers from photosynthetic bacteria: A comparison of Rhodobacter sphaeroides and Rhodobacter capsulatus mutants

The rates, yields, mechanisms and directionality of electron transfer (ET) are explored in twelve pairs of Rhodobacter (R.) sphaeroides and R. capsulatus mutant RCs designed to defeat ET from the excited primary donor (P*) to the A-side cofactors and re-direct ET to the normally inactive mirror-image B-side cofactors. In general, the R. sphaeroides variants have larger P + H B - yields (up to similar to ~90%) than their R. capsulatus analogs (up to similar to ~60%), where H B is the B-side bacteriopheophytin. Substitution of Tyr for Phe at L-polypeptide position L181 near B B primarily increases the contribution of fast P* → P + B B - → P + H B - two-step ET, where B-B is the "bridging" B-side bacteriochlorophyll. The second step (similar to ~6-8 ps) is slower than the first (similar to ~3-4 ps), unlike A-side two-step ET (P* → P + B A - → P + H A - ) where the second step (similar to ~1 ps) is faster than the first (similar to ~3-4 ps) in the native RC. Substitutions near H B , at L185 (Leu, Trp or Arg) and at M-polypeptide site M133/131 (Thr, Val or Glu), strongly affect the contribution of slower (20-50 ps) P* → P + H B - one-step superexchange ET. Here, both ET mechanisms are effective in directing electrons "the wrong way" to H B and both compete with internal conversion of P* to the ground state (similar to ~200 ps) and ET to the A-side cofactors. Collectively, the work demonstrates cooperative amino-acid control of rates, yields and mechanisms of ET in bacterial RCs and how A- vs. B-side charge separation can be tuned in both species.

Charge Separation↗
DOE OSTI2014

Crystal structure of cbbF from Zymomonas mobilis and its functional implication

Highlights: • The crystal structure of one cbbF from Zymomonas mobilis was revealed. • Scores of residues form two secondary structures with a non-polar protruded residue. • It exists as a dimeric form in solution. - Abstract: A phosphate group at the C1-atom of inositol-monophosphate (IMP) and fructose-1,6-bisphosphate (FBP) is hydrolyzed by a phosphatase IMPase and FBPase in a metal-dependent way, respectively. The two enzymes are almost indiscernible from each other because of their highly similar sequences and structures. Metal ions are bound to residues on the β1- and β2-strands and one mobile loop. However, FBP has another phosphate and FBPases exist as a higher oligomeric state, which may discriminate FBPases from IMPases. There are three genes annotated as FBPases in Zymomonas mobilis, termed also cbbF (ZmcbbF). The revealed crystal structure of one ZmcbbF shows a globular structure formed by five stacked layers. Twenty-five residues in the middle of the sequence form an α-helix and a β-strand, which occupy one side of the catalytic site. A non-polar Leu residue among them is protruded to the active site, pointing out unfavorable access of a bulky charged group to this side. In vitro assays have shown its dimeric form in solution. Interestingly, two β-strands of β1 and β2 are disordered in the ZmcbbF structure. These data indicate that ZmcbbF might structurally belong to IMPase, and imply that its active site would be reorganized in a yet unreported way.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2014

Live-cell topology assessment of URG7, MRP6{sub 102} and SP-C using glycosylatable green fluorescent protein in mammalian cells

Highlights: • Glycosylatable GFP (gGFP) is developed for the use in mammalian cells. • gGFP selectively loses its fluorescence upon N-linked glycosylation in the ER lumen. • Differential fluorescence/glycosylation pattern probes membrane protein topology. • Membrane topology of URG7, MRP6{sub 102}, and SP-C was determined by gGFP tagging in vivo. - Abstract: Experimental tools to determine membrane topology of a protein are rather limited in higher eukaryotic organisms. Here, we report the use of glycosylatable GFP (gGFP) as a sensitive and versatile membrane topology reporter in mammalian cells. gGFP selectively loses its fluorescence upon N-linked glycosylation in the ER lumen. Thus, positive fluorescence signal assigns location of gGFP to the cytosol whereas no fluorescence signal and a glycosylated status of gGFP map the location of gGFP to the ER lumen. By using mammalian gGFP, the membrane topology of disease-associated membrane proteins, URG7, MRP6{sub 102}, SP-C(Val) and SP-C(Leu) was confirmed. URG7 is partially targeted to the ER, and inserted in C{sub in} form. MRP6{sub 102} and SP-C(Leu/Val) are inserted into the membrane in C{sub out} form. A minor population of untargeted SP-C is removed by proteasome dependent quality control system.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2016

Molecular cloning and expression analysis of cytochrome c oxidase subunit II from Sitophilus zeamais

Cytochrome c oxidase subunit II (COX II) containing a dual core CuA active site is one of the core subunits of mitochondrial Cytochrome c oxidase (Cco), which plays a significant role in the physiological process. In this report, the full-length cDNA of COXII gene was cloned from Sitophilus zeamais, which had an open reading frame (ORF) of 684 bp encoding 227 amino acids residues. The predicted COXII protein had a molecular mass of 26.2 kDa with pI value of 6.37. multiple sequence alignment and phylogenetic analysis indicated that Sitophilus zeamais COXII had high sequence identity with the COXII of other insect species. The gene was subcloned into the expression vector pET-32a, and induced by isopropyl β-D-thiogalactopyranoside (IPTG) in E. coli Transetta (DE3) expression system. Finally the recombinant COXII with 6-His tag was purified using affinity chromatography with Ni{sup 2+}-NTA agarose. Western Blotting (WB) showed the recombinant protein was about 44 kD, and the concentration of fusion protein was 50 μg/mL. UV-spectrophotometer and infrared spectrometer analysis showed that recombinant COXII could catalyze the oxidation of substrate Cytochrome C (Cyt c), and influenced by allyl isothiocyanate (AITC). By using molecular docking method, It was found that a sulfur atom of AITC structure could form a length of 2.9 Å hydrogen bond with Leu-31. These results suggested that tag-free COXII was functional and one of the action sites of AITC, which will be helpful to carry out a point mutation in binding sites for the future research. - Highlights: • A full-length cDNA of COXII was cloned from the Sitophilus zeamais. • We were successfully expressed the recombinant COXII and optimized the expression conditions. • After enterokinase digesting, the tag-free COXII was functional and affected by AITC. • Through the relevant data analysis, The COXII of Sitophilus zeamais might be one of the action sites of AITC.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2017

Structural insights into the binding of lauric acid to CYP107L2 from Streptomyces avermitilis

Streptomyces avermitilis is an actinobacterium known to produce clinically useful macrolides including avermectins. CYP107L2 from S. avermitilis shares a high sequence similarity with the PikC (CYP107L1) from S. venezuelae. To elucidate the structural features of CYP107L2, we conducted biochemical and structural characterization of CYP107L2 from S. avermitilis. The CYP107L2 gene was cloned, and its recombinant protein was expressed and purified. The CYP107L2 showed a low-spin state of heme, and the reduced form yielded the CO difference spectra with a maximal absorption at 449 nm. Binding of pikromycin and lauric acid yielded the typical type I spectra with K{sub d} values of 4.8 ± 0.3 and 111 ± 9 μM, respectively. However, no metabolic product was observed in the enzyme reaction. X-ray crystal structures of the ligand-free CYP107L2 and its complex with lauric acid were determined at the resolution of 2.6 and 2.5 Å, respectively. CYP107L2 showed a well-conserved CYP structure with a wide-open substrate-binding cavity. The lauric acid is bound mainly via hydrophobic interactions with the carboxylate group of lauric acid coordinated to the heme of P450. Glu-40 and Leu-382 residues in the CYP107L2 complex with lauric acid showed significant conformational changes to provide plentiful room for the lauric acid in the substrate-binding site. - Highlights: • CYP107L2 from S. avermitilis shares a high sequence similarity with the PikC. • Purified CYP107L2 yielded a typical type I binding spectra to pikromycin and lauric acid. • Crystal structure of CYP107L2 complex with lauric acid was determined at 2.5 Å resolution. • Laurate is bound mainly via hydrophobic interactions in the substrate binding cavity of CYP107L2.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗