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All sourcesNASA NTRSDOE OSTI
DOE OSTI2018

Crystal Graph Convolutional Neural Networks for an Accurate and Interpretable Prediction of Material Properties

The use of machine learning methods for accelerating the design of crystalline materials usually requires manually constructed feature vectors or complex transformation of atom coordinates to input the crystal structure, which either constrains the model to certain crystal types or makes it difficult to provide chemical insights. Here, we develop a crystal graph convolutional neural networks framework to directly learn material properties from the connection of atoms in the crystal, providing a universal and interpretable representation of crystalline materials. Our method provides a highly accurate prediction of density functional theory calculated properties for eight different properties of crystals with various structure types and compositions after being trained with 10 4 data points. Further, our framework is interpretable because one can extract the contributions from local chemical environments to global properties. Using an example of perovskites, we show how this information can be utilized to discover empirical rules for materials design.

36 MATERIALS SCIENCE↗
DOE OSTI2013

Alkali metal and ammonium fluoro(trifluoroacetato)metallates M Prime [M Prime Prime {sub 3}({mu}{sub 3}-F)(CF{sub 3}COO){sub 6}(CF{sub 3}COOH){sub 3}], where M Prime = Li, Na, K, NH{sub 4}, Rb, or Cs and M Prime Prime = Ni or Co. Synthesis and crystal structures

A series of fluoro(trifluoroacetato)metallates were synthesized by crystallization from solutions in trifluoroacetic acid containing nickel(II) or cobalt(II) nitrate hydrates and alkali metal or ammonium fluorides: Li[Ni{sub 3}({mu}{sub 3}-F)(CF{sub 3}COO){sub 6}(CF{sub 3}COOH){sub 3}](CF{sub 3}COOH){sub 3} (I), M Prime [Ni{sub 3}({mu}{sub 3}-F)(CF{sub 3}COO){sub 6}(CF{sub 3}COOH){sub 3}] (M Prime = Na (II), NH{sub 4} (IV), Rb (V), and Cs (VI)), NH{sub 4}[Co{sub 3}({mu}{sub 3}-F) (CF{sub 3}COO){sub 6}(CF{sub 3}COOH){sub 3}] (III), and Cs[Ni{sub 3}({mu}{sub 3}-F)(CF{sub 3}COO){sub 6}(CF{sub 3}COOH){sub 3}](CF{sub 3}COOH){sub 0.5} (VII). The crystal structures of these compounds were determined by single-crystal X-ray diffraction. All structures contain triangular trinuclear complex anions [M{sub 3} Double-Prime ({mu}{sub 3}-F)(CF{sub 3}COO){sub 6}(CF{sub 3}COOH){sub 3}]{sup -} (M Double-Prime = Ni, Co) structurally similar to trinuclear 3d metal oxo carboxylate complexes. The three-coordinated F atom is located at the center of the triangle formed by Ni(II) or Co(II) atoms. The metal atoms are linked in pairs by six bridging trifluoroacetate groups located above and below the plane of the [M Double-Prime {sub 3} F] triangle. The oxygen atoms of the axial CF{sub 3}COOH molecules complete the coordination environment of M Double-Prime atoms to an octahedron.

36 MATERIALS SCIENCE↗
DOE OSTI2026

MADA: Multi-Agent Design Assistant

MADA (Multi-Agent Design Assistant) is a Large Language Model (LLM) powered multi-agent framework that coordinates specialized agents for complex design workflows. The system was designed for HPC workflows with the following agents in mind: 1) A Job Management Agent (JMA) launches and manages ensemble simulations on HPC systems, 2) a Geometry Agent (GA) generates meshes, and 3) an Inverse Design Agent (IDA) proposes new designs informed by simulation outcomes. Our framework reduces cumbersome manual workflow setup, and enables automated design exploration at scale. However, the software also enables users to rapidly create new multi-agent systems. Simply define new agents in a configuration file, giving each their own set of tools (via MCP), and then chat and prompt your new multi-agent system. Is

Gunnarson, BrianS [Lawrence Livermore National Lab↗
DOE OSTI2025

SOX2-driven enhancer landscape defines the transcriptional architecture of retinogenesis

Retinal neurogenesis is mediated by the coordinated activities of a complex gene regulatory network (GRN) of transcription factors (TFs) in multipotent retinal progenitor cells (RPCs). How this GRN mechanistically guides neural competence remains poorly understood. In this study, we present integrated transcriptional, genetic and genomic analyses to uncover the regulatory mechanisms of SOX2, a key factor in establishing neural identity in RPCs. We show that SOX2 is preferentially enriched in the RPC-specific enhancer landscape associated with essential regulators of retinogenesis. Disruption of SOX2 expression impairs retinogenesis, marked by a selective loss of enhancer activity near genes essential for RPC proliferation and lineage specification. We identified the RPC transcription factor VSX2 as a binding partner for SOX2 and, together, SOX2 and VSX2 co-target a core, retina-specific chromatin repertoire characterized by enhanced TF binding and robust chromatin accessibility. This cooperative binding establishes a shared SOX2-VSX2 transcriptional code that promotes the expression of crucial regulators of neurogenesis while repressing the acquisition of alternative lineage cell fate. Our data illuminate fundamental biological insights on how transcription factors act in concert to drive chromatin-based genetic programs underlying retinal neural identity.

Chromatin↗
DOE OSTI2015

High Affinity Binding of Indium and Ruthenium Ions by Gastrins

The peptide hormone gastrin binds two ferric ions with high affinity, and iron binding is essential for the biological activity of non-amidated forms of the hormone. Since gastrins act as growth factors in gastrointestinal cancers, and as peptides labelled with Ga and In isotopes are increasingly used for cancer diagnosis, the ability of gastrins to bind other metal ions was investigated systematically by absorption spectroscopy. The coordination structures of the complexes were characterized by extended X-ray absorption fine structure (EXAFS) spectroscopy. Changes in the absorption of gastrin in the presence of increasing concentrations of Ga 3+ were fitted by a 2 site model with dissociation constants (K d ) of 3.3 x 10 -7 and 1.1 x 10 -6 M. Although the absorption of gastrin did not change upon the addition of In 3+ ions, the changes in absorbance on Fe 3+ ion binding in the presence of indium ions were fitted by a 2 site model with Kd values for In 3+ of 6.5 x 10 -15 and 1.7 x 10 -7 M. Similar results were obtained with Ru 3+ ions, although the K d values for Ru 3+ of 2.6 x 10 -13 and 1.2 x 10 -5 M were slightly larger than observed for In 3+ . The structures determined by EXAFS all had metal:gastrin stoichiometries of 2:1 but, while the metal ions in the Fe, Ga and In complexes were bridged by a carboxylate and an oxygen with a metal-metal separation of 3.0–3.3 Å, the Ru complex clearly demonstrated a short range Ru—Ru separation, which was significantly shorter, at 2.4 Å, indicative of a metal-metal bond. We conclude that gastrin selectively binds two In 3+ or Ru 3+ ions, and that the affinity of the first site for In 3+ or Ru 3+ ions is higher than for ferric ions. Some of the metal ion-gastrin complexes may be useful for cancer diagnosis and therapy.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2014

Cell cycle control and seed development

Seed development is a complex process that requires coordinated integration of many genetic, metabolic, and physiological pathways and environmental cues. Different cell cycle types, such as asymmetric cell division, acytokinetic mitosis, mitotic cell division, and endoreduplication, frequently occur in sequential yet overlapping manner during the development of the embryo and the endosperm, seed structures that are both products of double fertilization. Asymmetric cell divisions in the embryo generate polarized daughter cells with different cell fates. While nuclear and cell division cycles play a key role in determining final seed cell numbers, endoreduplication is often associated with processes such as cell enlargement and accumulation of storage metabolites that underlie cell differentiation and growth of the different seed compartments. This review focuses on recent advances in our understanding of different cell cycle mechanisms operating during seed development and their impact on the growth, development, and function of seed tissues. Particularly, the roles of core cell cycle regulators, such as cyclindependent-kinases and their inhibitors, the Retinoblastoma-Related/E2F pathway and the proteasome-ubiquitin system, are discussed in the contexts of different cell cycle types that characterize seed development. The contributions of nuclear and cellular proliferative cycles and endoreduplication to cereal endosperm development are also discussed.

retinoblastoma-related↗
DOE OSTI2017

Electric Current Filamentation Induced by 3D Plasma Flows in the Solar Corona

Many magnetic structures in the solar atmosphere evolve rather slowly, so they can be assumed as (quasi-)static or (quasi-)stationary and represented via magnetohydrostatic (MHS) or stationary magnetohydrodynamic (MHD) equilibria, respectively. While exact 3D solutions would be desired, they are extremely difficult to find in stationary MHD. We construct solutions with magnetic and flow vector fields that have three components depending on all three coordinates. We show that the noncanonical transformation method produces quasi-3D solutions of stationary MHD by mapping 2D or 2.5D MHS equilibria to corresponding stationary MHD states, that is, states that display the same field-line structure as the original MHS equilibria. These stationary MHD states exist on magnetic flux surfaces of the original 2D MHS states. Although the flux surfaces and therefore also the equilibria have a 2D character, these stationary MHD states depend on all three coordinates and display highly complex currents. The existence of geometrically complex 3D currents within symmetric field-line structures provides the basis for efficient dissipation of the magnetic energy in the solar corona by ohmic heating. We also discuss the possibility of maintaining an important subset of nonlinear MHS states, namely force-free fields, by stationary flows. We find that force-free fields with nonlinear flows only arise under severe restrictions of the field-line geometry and of the magnetic flux density distribution.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2016

Advancements in the H-Canyon Exhaust Ventilation System Inspections at the Savannah River Site - 16030

A facility safety envelope requires management of activities to ensure no unacceptable radiological or chemical hazards to the public, site worker and environment occur. While appropriate design and construction methods ensure an initial physical plant configuration, what actions must an operating Facility take to ensure the physical plant continues to meet a safety configuration throughout Facility life? While a physical walk down of the plant is a tried and true method to confirm conditions, what other methods must be used when a walk down is not possible? What inspection methods are used when balancing budget pressures against obtaining inspection data? The periodic inspections of the H-Canyon Exhaust Tunnel are performed remotely. The 2015 remote Tunnel inspection has been the most successful inspection to date. This presentation highlights the continued lessons learned with the most recent 2015 remote Tunnel inspection. These lessons learned are applicable to Facilities considering or performing remote inspections. The Recovery Crawler Project was tasked with determining if the 2014 Inspection Crawler could be retrieved, perform the retrieval if feasible and complete the inspection of the remaining sections of the exhaust tunnel that were not previously performed. The objectives for the project were met, the Inspection Crawler was deemed unusable and left in place and the Recovery Crawler performed the complete 143 meters (470 feet) of tunnel inspection and an additional 55 meters (180 feet) of exhaust tunnel inspection not previously completed. The remote inspection of a 60+ year operating Canyon Exhaust tunnel is a complex endeavor requiring close coordination of multiple organizations, adherence to Conduct of Operations, Radiological Safety, Worker Safety, etc. principles as well as alignment with Facility Safety Basis requirements. This paper discusses the challenges, actions required getting ready for the 2015 recovery and continued inspection and the hazards encountered performing the actual recovery/inspection. (authors)

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗
DOE OSTI2018

H-Canyon Ventilation System Exhaust Tunnel Inspection at the Savannah River Site - 18052

The Department of Energy (DOE) H-Canyon Facility at the Savannah River Site (SRS) is operated by Savannah River Nuclear Solutions (SRNS). The Facility Structural Integrity Program (SIP) performs periodic visual inspections to confirm the component is capable of performing its safety function. This Program provides the process to document the conditions of safety related structural systems and components, their damage mechanisms, and recommend repairs if required before there is impact on the safety envelope. The H-Canyon Exhaust Tunnel is part of the H-Canyon Exhaust Ventilation System and is periodically inspected under the Structural Integrity Program. The Tunnel performs a Safety Class passive design feature function that is available 100% of the time. The Tunnel directs Canyon process air from the Canyon to the Sand Filter System. The radiological and chemical airborne activity coupled with the physical configuration of the tunnel precludes a manned entry into the tunnel. Tunnel inspections have been performed using cameras on a stick, referred to as pole cameras prior to CY2003. Since CY2003, five camera equipped crawlers have been used with varying levels of inspection success. With each successive crawler inspection, expectations have increased to perform tasks beyond visual examinations. The 2017 crawler performed the visual inspection but also included improvements on crawler performance, such as testing the use of wireless capability and remediation of crawler travel route, to the addition of stationary cameras and lighting at key locations. The latest 2017 crawler successfully traveled the entire length of the tunnel between the Canyon and Sand Filter System for the second time since development, thus providing key visual data for the integrity program [2]. In addition, several access ports were installed in 2017 following the removal of concrete core samples that allow for new visual inspection of the Canyon Crossover tunnel, thus providing information for an area that was generally inaccessible for monitoring. Planning for the 2019 crawler inspection is underway with the expectations to improve upon inspection cameras and also introduce mapping technologies such as LIDAR. The challenge to obtain meaningful data from the remote inspections of a 60+ year operating Canyon Exhaust tunnel continues to be a complex endeavor requiring close coordination of multiple organizations, adherence to Conduct of Operations, Radiological Safety, Worker Safety, etc. principles as well as alignment with Facility Safety Basis requirements. This paper discusses the continuing improvements in inspection techniques and the challenges associated these inspections. (authors)

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗
DOE OSTI2024

Structural Trends and Vibrational Analysis of N,N,N′,N′−Tetramethylmalonamide Complexes Across the Lanthanide Series

Fundamental understanding of coordination chemistry across the lanthanide series is essential for explaining chemical behavior of rare-earth metals in complex liquid-liquid extraction processes, which in turn affects the distribution ratios and efficacy of separations as a whole. In this work, we explore the structural trends between the lanthanides and a neutral N,N,N',N'-tetramethylmalonamide (TMMA) ligand within four isolated families of solid-state compounds: Ln(trans-TMMA) 2 (NO 3 ) 3 Ln=La-Nd, Sm; Ln(cis-TMMA) 2 (NO 3 ) 3 Ln=Eu-Tb, Er; [Ln(TMMA) 3 (NO 3 ) 2 ][Ln(TMMA)(NO 3 ) 4 ] Ln=Dy-Tm; Ln(Κ 2 -TMMA)(iPrOH)(NO 3 ) 3 and Ln(Κ 1 -TMMA)(Κ 2 -TMMA)(NO 3 ) 3 Ln=Yb, Lu. Moving across the lanthanide series, we note the formation of both discrete charge-neutral complexes, as well as charged molecular anion-cation pairs, with variations in spatial ligand arrangement, coordination numbers, and ligand denticities. IR and Raman spectroscopy paired with DFT frequency calculations were used for an in-depth investigation of vibrational modes unique to each structural family. The collection of isolated model compounds was also discussed in the context of liquid-liquid separations based on reported distribution ratios from malonamide extraction.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2012

Formerly Used Sites Remedial Action Program (FUSRAP) W. R. Grace Building 23 Remedial Action-Challenges and Successes - 12247

Monazite sand processing was conducted at the W. R. Grace Curtis Bay Facility (Baltimore, Maryland) from mid-May 1956 through the spring of 1957 under license to the Atomic Energy Commission (AEC), for the extraction of source material in the form of thorium, as well as rare earth elements. The processing was conducted in the southwest quadrant of a ca. 100 year old, five-story, building (Building 23) in the active manufacturing portion of the facility. Building components and equipment in the southwest quadrant of Building 23 exhibited residual radiological activity remaining from the monazite sand processing. U.S. Army Corps of Engineers (USACE) conducted a remedial investigation (RI) and feasibility study (FS) and prepared a Record of Decision (ROD) to address residual radioactivity on building components and equipment in the southwest quadrant of Building 23. The remedy selected for the southwest quadrant of Building 23, which was documented in the ROD (dated May 2005), was identified as 'Alternative 2: Decontamination With Removal to Industrial Use Levels'. The selected remedy provided for either decontaminating or removing areas of radioactivity to meet the RGs. Demonstration of compliance with the selected ARAR was performed using the Multi-Agency Radiation Survey and Site Investigation Manual (MARSSIM) and other appropriate guidance, as well as appropriate dose modeling codes where necessary. USACE-Baltimore District along with its private industry partner worked together under the terms of a 2008 Settlement Agreement to implement the remedial action (RA) for the southwest quadrant of Building 23. The RA was conducted in two phases: Phase 1 was completed to improve the building condition for support of subsequent remedial action and decrease scope uncertainty of the remedial action, and Phase 2 included decontamination and removal activities to meet the RGs and demonstration of compliance with the selected ARAR. Challenges encountered during the RA include: coordination with stakeholders, coordination between multiple RA contractors, addressing unique structural challenges for Building 23, nonradiological hazards associated with the RA, weather issues, and complex final status survey (FSS) coordination. The challenges during the Phase 1 RA were handled successfully. The challenges for the Phase 2 RA, which is anticipated to be complete by late-summer of 2012, have been handled successfully so far. By fall of 2012, USACE is expecting to finalize a robust RA Closure Report, including the Final Status Survey Report, which summarizes the RA activities and documents compliance with the ROD. During the ongoing RA at Building 23, there have been and still are many challenges both technically and from a project management perspective, due in part to the nature and extent of impact at the site (residual radioactivity within an active processing building), dual oversight by the property owner and USACE, and site-specific challenges associated with a complex RA and multiple contractors. Currently, USACE and its industry partner are overseeing the completion of RA field activities. RA closure documentation for the remediation of Building 23 to address residual contamination in building materials will be reviewed/approved by USACE and its industry partner upon completion of the field activities. USACE and its industry partner are working well together, through the Settlement Agreement, to conduct a cost-efficient and effective remedial action to address the legacy issues at Building 23. This cooperative effort has set a firm foundation for achieving a successful RA at the RWDA using a 'forward think' approach, and it is a case study for other sites where an industry partner is involved. The collaborative effort led to implementation of an RA which is acceptable to the site owner, the regulators, and the public, thus allowing USACE to move this project forward successfully in the FUSRAP program. (authors)

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗
DOE OSTI2021

Coordination and control – limits in standard representations of multi-reservoir operations in hydrological modeling

Abstract. Major multi-reservoir cascades represent a primary mechanism for dealing with hydrologic variability and extremes within institutionally complex river basins worldwide. These coordinated management processes fundamentally reshape water balance dynamics. Yet, multi-reservoir coordination processes have been largely ignored in the increasingly sophisticated representations of reservoir operations within large-scale hydrological models. The aim of this paper is twofold, namely (i) to provide evidence that the common modeling practice of parameterizing each reservoir in a cascade independently from the others is a significant approximation and (ii) to demonstrate potential unintended consequences of this independence approximation when simulating the dynamics of hydrological extremes in complex reservoir cascades. We explore these questions using the Water Balance Model, which features detailed representations of the human infrastructure coupled to the natural processes that shape water balance dynamics. It is applied to the Upper Snake River basin in the western US and its heavily regulated multi-reservoir cascade. We employ a time-varying sensitivity analysis that utilizes the method of Morris factor screening to explicitly track how the dominant release rule parameters evolve both along the cascade and in time according to seasonal high- and low-flow events. This enables us to address aim (i) by demonstrating how the progressive and cumulative dominance of upstream releases significantly dampens the ability of downstream reservoir rules' parameters to influence flow conditions. We address aim (ii) by comparing simulation results with observed reservoir operations during critical low-flow and high-flow events in the basin. Our time-varying parameter sensitivity analysis with the method of Morris clarifies how independent single-reservoir parameterizations and their tacit assumption of independence leads to reservoir release behaviors that generate artificial water shortages and flooding, whereas the observed coordinated cascade operations avoided these outcomes for the same events. To further explore the role of (non-)coordination in the large deviations from the observed operations, we use an offline multi-reservoir water balance model in which adding basic coordination mechanisms drawn from the observed emergency operations is sufficient to correct the deficiencies of the independently parameterized reservoir rules from the hydrological model. These results demonstrate the importance of understanding the state–space context in which reservoir releases occur and where operational coordination plays a crucial role in avoiding or mitigating water-related extremes. Understanding how major infrastructure is coordinated and controlled in major river basins is essential for properly assessing future flood and drought hazards in a changing world.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2021

Molecular Dynamics Simulations of Complexation of Am(III) with a Preorganized Dicationic Ligand in an Ionic Liquid

Preorganized ligands with imidazolium arms have been found to be highly selective in extracting Am(III) into ionic liquids (ILs), but the detailed structure and mechanism of the complexation process in the ionic solvation environment are unclear. Here, we carry out molecular dynamics simulation of the complexation of Am(III) with a preorganized 1,10-phenanthroline-2,9-dicarboxamide complexant (L) functionalized with alkyl chains and imidazolium cations in the butylmethylimidazolium bistriflimide ([BMIM][NTf 2 ]) IL. Both Am:L (1:1) and Am:L 2 (1:2) complexes are examined. In the absence of the ligand, Am(III) is found to be coordinated by six NTf 2 anions via nine O donors in the first solvation shell. In the Am:L complex, Am(III) is coordinated to the ligand via two O donors and four NTf 2 anions via seven O donors in the first coordination shell. In the Am:L 2 complex, Am(III) is coordinated to the two ligands via four O donors and four NTf 2 anions via five O donors. The imidazolium arms of the ligands play an important role in the secondary solvation environment by attracting NTf 2 anions closer to the metal center. As a result, we find that the binding free energy for the second L 2+ ligand is twice that for the first L 2+ ligand, making the Am:L 2 complex significantly more stable than the Am:L complex. This study highlights the multiple factors and tunability in using preorganized ligands with charged functional groups in an ionic solvation environment, which could hold the key to achieving desired selectivity in ion extraction efficiency.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2025

Coordination Chemistry and Photoluminescence of Sm(II) Dibenzo-24-crown-8 Complexes

Three Sm(II) dibenzo-24-crown-8 (db24c8) complexes were synthesized in anhydrous, air-free conditions via the reaction of SmI 2 with db24c8 and tetrabutylammonium tetraphenylborate ([TBA][BPh 4 ]; where needed) in acetonitrile (CH 3 CN), dimethoxyethane (DME), and tetrahydrofuran (THF) to yield [Sm(db24c8)(CH 3 CN) 2 ][BPh 4 ][I]·CH 3 CN, [Sm(db24c8)(DME)]I 2 , and [Sm(db24c8)(THF) 2 ]I 2 , respectively. In each case, a 10-coordinate, staggered dodecahedral (2:6:2) environment is formed around the Sm 2+ center that is completed by either two solvent molecules (CH 3 CN or THF) or one bidentate solvent molecule (DME). Inner-sphere solvent molecules can be excluded by reacting SmI 2 with db24c8 in 1:3 THF:toluene to yield Sm(db24c8)I 2 . Here, this molecule features a distorted, eight-coordinate, hexagonal pyramidal Sm 2+ metal center, where the coordinated db24c8 molecule shows a torsion angle unexpectedly close to the 180° antiperiplanar arrangement and two uncoordinated db24c8 oxygen atoms. Solution UV–vis–NIR measurements demonstrate that Sm 2+ is a good size match for the cavity of various db24c8 conformations and that Eu 2+ and Yb 2+ exhibit competition between acetonitrile solvation and the Eu 2+ and Yb 2+ /db24c8 complexes in solution. During excitation by 546 nm light, both [Sm(db24c8)(DME)]I 2 and [Sm(db24c8)(THF) 2 ]I 2 exhibit mixed 5d → 4f and 4f → 4f emission at 20 °C and exclusively 4f → 4f at −180 °C, whereas Sm(db24c8)I 2 only shows 5d → 4f emission regardless of temperature. Photoluminescence from [Sm(db24c8)(CH 3 CN) 2 ][BPh 4 ][I]·CH 3 CN is quenched.

Cations↗
DOE OSTI2014

Luminescence of silicon dioxide different polymorph modification: Silica glass, α-quartz, stishovite, coesite

Stishovite, coesite, oxygen deficient silica glass as well as irradiated α-quartz, exhibit two luminescence bands: a blue one and an UV one both excitable in the range within optical gap. There are similarities in spectral position and in luminescence decay kinetics among centers in these materials. The interpretation was done on the model of Oxygen Deficient Centers (ODC) [1]. The ODC(II) or twofold coordinated silicon and ODC(I) are distinguished. ODC(I) is object of controversial interpretation. The Si-Si oxygen vacancy [2] and complex defect including latent twofold coordinated silicon [3] are proposed. Remarkably, this luminescence center does not exist in as grown crystalline α-quartz. However, destructive irradiation of α-quartz crystals with fast neutrons, γ rays, or dense electron beams [4–6] creates ODC(I) like defect. In tetrahedron structured coesite the self trapped exciton (STE) luminescence observed with high energetic yield (∼30%) like in α-quartz crystals. STE in coesite coexists with oxygen deficient-like center. In octahedron structured stishovite STE was not found and only ODC exists.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗
DOE OSTI2017

Syntheses, structures, electrochemistry and catalytic oxidation degradation of organic dyes of two new coordination polymers derived from Cu(II) and Mn(II) and 1-(tetrazo-5-yl)-4-(triazo-1-yl)benzene

Two new coordination polymers (CPs), namely, [Cu{sub 2}(ttbz)(H{sub 2}btc){sub 2}(OH)]{sub n} (1) and [Mn(ttbz){sub 2}(H{sub 2}O){sub 2}]{sub n} (2) (Httbz =1-(tetrazo-5-yl)-4-(triazo-1-yl)benzene, H{sub 3}btc =1,3,5-benzenetricarboxylic acid), have been hydrothermally synthesized and structurally characterized. Complex 1 exhibits a (3,5,5,5)-connected 2D layer with a Schläfli symbol of (3·4{sup 2})(3·4{sup 4}0.5{sup 2}0.6{sup 3})(3{sup 2}0.4{sup 4}0.5{sup 2}0.6{sup 2})(3{sup 2}0.4{sup 4}0.5{sup 3}0.6), in which the ttbz{sup -} ligand can be described as μ{sub 5}-bridge, linking Cu(II) ions into a 2D layer and H{sub 2}btc{sup -} ions play a supporting role in complex 1. The ttbz{sup -} ligand in complex 2 represents the bridging coordination mode, connecting two Mn(II) ions to form the infinite 1D zigzag chains, respectively, which are further connected by two different types of hydrogen bonds to form a 3D supramolecular. Furthermore, catalytic oxidation activities toward organic dyes and electrochemical behaviors of the title complexes have been investigated at room temperature in aqueous solutions, indicating these complexes may be applicable to color removal in a textile wastewater stream and practical applications in areas of electrocatalytic reduction toward nitrite, respectively. - Graphical abstract: Two new coordination polymers based on different structural characteristics have been hydrothermally synthesized by the mixed ligands. The catalytic oxidation activities toward organic dyes and electrochemical behaviors of the title complexes have been investigated. - Highlights: • The organic ligand containing the tetrazolyl group and triazolyl group with some advantages has been used. • Two new coordination polymers with different structural characteristics has been discussed in detail. • Catalytic oxidation activities toward organic dyes and electrochemical behaviors of the title complexes have been investigated.

36 MATERIALS SCIENCE↗
DOE OSTI2017

Transition Metal (II) Complexes with a Novel Azo-azomethine Schiff Base Ligand: Synthesis, Structural and Spectroscopic Characterization, Thermal Properties and Biological Applications

The pyrimidine based azo-linked Schiff base ligand, 5-benzoyl-1-((E)-(2-hydroxy-3-methoxy-5-((E)phenyldiazenyl)benzylidene)amino)-4-phenylpyrimidin-2(1H)-one (HL), and its transition metal (II) complexes were synthesized and defined by using {sup 1}H-NMR, {sup 13}C-NMR, Elemental analysis, FT-IR, MS, UV–vis, molar conductance, magnetic susceptibility and thermal analysis techniques. According to the conductance data obtained indicate all of the metal complexes have non-electrolytic nature. Square pyramidal geometry for Pd(II) and octahedral geometry for all the other complexes synthesized was concluded from the electronic absorption spectra and magnetic susceptibility measurements of the complexes. Investigation of the significant infrared bands of the active groups in the ligand and the solid complexes alludes that HL is coordinated to the metal ions ONO tridentate manner. Moreover, the absorption and emission properties of the azo-azomethine based ligand and its complexes were investigated. The results obtained show that fluorescence emissions of the ligand and its metal (II) complexes depend on the type of transition metal ions and the derivatives displayed moderate Stokes’ shift values between 44 and 107 nm. All the compounds exhibited superb photostability. Further, antioxidant, antimicrobial and pBR322 plasmid DNA cleavage activities were investigated. All compounds showed good DPPH• (1,1-diphenyl-2-picrylhydrazyl) radical scavenging activity and complexes of [MnL{sub 2}]•H{sub 2}O and [NiL{sub 2}]•H{sub 2}O exhibited excellent metal chelating activity. All the compounds tested demonstrated two strand DNA cleavage activities.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2017

Horse Liver Alcohol Dehydrogenase: Zinc Coordination and Catalysis

During catalysis by liver alcohol dehydrogenase (ADH), a water bound to the catalytic zinc is replaced by the oxygen of the substrates. The mechanism might involve a pentacoordinated zinc or a double-displacement reaction with participation by a nearby glutamate residue, as suggested by studies of human ADH3, yeast ADH1, and some other tetrameric ADHs. Zinc coordination and participation of water in the enzyme mechanism were investigated by X-ray crystallography. The apoenzyme and its complex with adenosine 5'-diphosphoribose have an open protein conformation with the catalytic zinc in one position, tetracoordinated by Cys-46, His-67, Cys-174, and a water molecule. The bidentate chelators 2,2'-bipyridine and 1,10-phenanthroline displace the water and form a pentacoordinated zinc. The enzyme–NADH complex has a closed conformation similar to that of ternary complexes with coenzyme and substrate analogues; the coordination of the catalytic zinc is similar to that found in the apoenzyme, except that a minor, alternative position for the catalytic zinc is ~1.3 Å from the major position and closer to Glu-68, which could form the alternative coordination to the catalytic zinc. Complexes with NADH and N-1-methylhexylformamide or N-benzylformamide (or with NAD+ and fluoro alcohols) have the classical tetracoordinated zinc, and no water is bound to the zinc or the nicotinamide rings. Here, the major forms of the enzyme in the mechanism have a tetracoordinated zinc, where the carboxylate group of Glu-68 could participate in the exchange of water and substrates on the zinc. Hydride transfer in the Michaelis complexes does not involve a nearby water.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗