Kwang S. Kim

Bio: Kwang S. Kim is an academic researcher from Ulsan National Institute of Science and Technology. The author has contributed to research in topics: Ab initio & Graphene. The author has an hindex of 97, co-authored 642 publications receiving 62053 citations. Previous affiliations of Kwang S. Kim include Asia Pacific Center for Theoretical Physics & IBM.

Self-assembled thermally highly stable 1-dimensional proton arrays.

Abstract: From a red proton complex of aldehyde derivatives of polyaromatic hydrocarbon with strong intermolecular hydrogen bonding, which are novel examples of intermolecular proton-bonded aldehydes of polyaromatic hydrocarbons, we find one-dimensional proton arrangement. The complex formed as 9-antraldehyde (Ant-CHO) reacts with HAuCl4 to form [(Ant-CHO)2H]+[AuCl4]− under dry condition, which are confirmed by single-crystal structure determination and infrared spectra analysis at varying temperatures. Since the compounds of distinctively hydrophobic nature are soluble only in limited organic polar solvents, the strong hydrogen bonds are clearly observed from both the electron density of X-ray analysis and the characteristic signature of the IR frequency. The proton complex units have the typical O−H+−O distance of the strong hydrogen bond similar to the Zundel-like cationic hydrogen bond (where two O atoms share a proton in the midpoint of the short O−O distance of ∼2.4 A). The chemical shift of 20.18 ppm origina...

An efficient non-reaction based colorimetric and fluorescent probe for the highly selective discrimination of Pd0 and Pd2+ in aqueous media

Abstract: A novel anthraquinone-imidazole based colorimetric and fluorogenic probe 1 is synthesized, which can discriminate the oxidation states of palladium (Pd0 and Pd2+) by naked eye with high selectivity in aqueous media owing to the difference in coordination within the right sized pocket of the probe molecule. The experimental results (fluorescence, UV/Vis and 1H NMR spectroscopy) aided by density functional theory (DFT) calculations reveal that charge transfer (CT) is the main cause of the selective detection of the oxidation states of palladium. In the 1–Pd2+ complex, which is deficient in electrons, all the electron transitions represent electron transfers from the probe molecule to the central metal atom i.e. partial ligand-to-metal transition excitation while electronically filled Pd0 shows electron transfers from the metal atom to the probe ligand i.e. partial metal-to-ligand transition excitation.

Ambient-Stable Cubic-Phase Hybrid Perovskite Reaching the Shockley–Queisser Fill Factor Limit via Inorganic Additive-Assisted Process

Abstract: Additive-assisted organic–inorganic perovskite materials have attracted substantial attention as photovoltaic light absorbers which lead to outstanding power conversion efficiency. Here we report an easy and effective fabrication of cubic-phase perovskite with an inorganic molecule additive like hydrazinium chloride (N2H5Cl, to be denoted as HZCl). We predict that this inorganic cation of N2H5+, which can substitute for the organic A-site in the perovskite structure, can tune Frohlich polaron properties by controlling the interaction strength and the number of proton coordinations to halide. This prediction is experimentally demonstrated with an optimized perovskite device with 2% N2H5Cl additive, which exhibits an unprecedented 85% fill factor (FF) with the highest value close to the Shockley–Queisser limit. An extra power conversion efficiency (PCE) of 2.3% and a fill factor (FF) efficiency of 14% are boosted. These optimized performances by additive effects lead to a new approach based on the theoretic...

Homology modeling and molecular dynamics study of chorismate synthase from Shigella flexneri.

Abstract: Shigellosis is a major public health problem in many developing countries. Antibiotic therapy can reduce the severity of the dysentery and prevent potentially lethal complication. However, owing to the increased resistance to most of the widely used and inexpensive antibiotics, there is an urgent need for new antibacterial agents, particularly those that act on novel targets. Chorismate synthase (CS) is a key enzyme in the shikimic acid pathway, which is essential for the synthesis of aromatic amino acids in bacteria. As an anti-bacterial drug target, CS has been well validated. A homology model of Shigella-CS with the flavin mononucleotide (FMN) binding was constructed using the crystal structure of CS from other species. The substrate 5-enolpyruvylshikimate 3-phosphate (EPSP) was subsequently docked into the active site based on previous theoretical studies. Molecular dynamics (MD) was used to refine the starting ternary model. The model was well conserved during the 1.8 ns MD simulation with the equilibrium root mean square deviation (RMSD) value of 3.5 angstrom. The substrate binding energy was calculated and the electrostatic energy was found to be the most important term for binding. Decomposition of binding energies revealed that R129, R125, R327, R134 and R48 are important residues involved in substrate binding, which is useful for further site-directed mutagenesis experiments. In the absence of crystal structure, our study provides an early insight into the structure of CS from Shigella flexneri and its binding to the substrate and cofactor, thus facilitating the inhibitor design.

Coordinate space translation technique for simulation of electronic process in the ion–atom collision

Abstract: Recently we developed a theoretical model of ion–atom collisions, which was made on the basis of a time-dependent density functional theory description of the electron dynamics and a classical treatment of the heavy particle motion. Taking advantage of the real-space grid method, we introduce a “coordinate space translation” technique to allow one to focus on a certain space of interest such as the region around the projectile or the target. Benchmark calculations are given for collisions between proton and oxygen over a wide range of impact energy. To extract the probability of charge transfer, the formulation of Ludde and Dreizler [J. Phys. B 16, 3973 (1983)] has been generalized to ensemble-averaging application in the particular case of O(3P). Charge transfer total cross sections are calculated, showing fairly good agreements between experimental data and present theoretical results.

I and i

Abstract: There is, I think, something ethereal about i —the square root of minus one. I remember first hearing about it at school. It seemed an odd beast at that time—an intruder hovering on the edge of reality. Usually familiarity dulls this sense of the bizarre, but in the case of i it was the reverse: over the years the sense of its surreal nature intensified. It seemed that it was impossible to write mathematics that described the real world in …

Fast parallel algorithms for short-range molecular dynamics

Abstract: Three parallel algorithms for classical molecular dynamics are presented. The first assigns each processor a fixed subset of atoms; the second assigns each a fixed subset of inter-atomic forces to compute; the third assigns each a fixed spatial region. The algorithms are suitable for molecular dynamics models which can be difficult to parallelize efficiently—those with short-range forces where the neighbors of each atom change rapidly. They can be implemented on any distributed-memory parallel machine which allows for message-passing of data between independently executing processors. The algorithms are tested on a standard Lennard-Jones benchmark problem for system sizes ranging from 500 to 100,000,000 atoms on several parallel supercomputers--the nCUBE 2, Intel iPSC/860 and Paragon, and Cray T3D. Comparing the results to the fastest reported vectorized Cray Y-MP and C90 algorithm shows that the current generation of parallel machines is competitive with conventional vector supercomputers even for small problems. For large problems, the spatial algorithm achieves parallel efficiencies of 90% and a 1840-node Intel Paragon performs up to 165 faster than a single Cray C9O processor. Trade-offs between the three algorithms and guidelines for adapting them to more complex molecular dynamics simulations are also discussed.

QUANTUM ESPRESSO: a modular and open-source software project for quantum simulations of materials

Abstract: QUANTUM ESPRESSO is an integrated suite of computer codes for electronic-structure calculations and materials modeling, based on density-functional theory, plane waves, and pseudopotentials (norm-conserving, ultrasoft, and projector-augmented wave). The acronym ESPRESSO stands for opEn Source Package for Research in Electronic Structure, Simulation, and Optimization. It is freely available to researchers around the world under the terms of the GNU General Public License. QUANTUM ESPRESSO builds upon newly-restructured electronic-structure codes that have been developed and tested by some of the original authors of novel electronic-structure algorithms and applied in the last twenty years by some of the leading materials modeling groups worldwide. Innovation and efficiency are still its main focus, with special attention paid to massively parallel architectures, and a great effort being devoted to user friendliness. QUANTUM ESPRESSO is evolving towards a distribution of independent and interoperable codes in the spirit of an open-source project, where researchers active in the field of electronic-structure calculations are encouraged to participate in the project by contributing their own codes or by implementing their own ideas into existing codes.

疟原虫var基因转换速率变化导致抗原变异[英]／Paul H, Robert P, Christodoulou Z, et al//Proc Natl Acad Sci U S A

Abstract: 抗原变异可使得多种致病微生物易于逃避宿主免疫应答。表达在感染红细胞表面的恶性疟原虫红细胞表面蛋白1（PfPMP1）与感染红细胞、内皮细胞、树突状细胞以及胎盘的单个或多个受体作用，在黏附及免疫逃避中起关键的作用。每个单倍体基因组var基因家族编码约60种成员，通过启动转录不同的var基因变异体为抗原变异提供了分子基础。