Search results for "ligandit"

Modeling the atomic and electronic structure of nanoparticle-ligand interfaces

2013

Suitability of MMGBSA for the selection of correct ligand binding modes from docking results

2019

The estimation of the correct binding mode and affinity of a ligand into a target protein using computational methods is challenging. However, docking can introduce poses from which the correct binding mode could be identified using other methods. Here, we analyzed the reliability of binding energy estimation using the molecular mechanics‐generalized Born surface area (MMGBSA) method without and with energy minimization to identify the likely ligand binding modes within docking results. MMGBSA workflow (a) outperformed docking in recognizing the correct binding modes of androgen receptor ligands and (b) improved the correlation coefficient of computational and experimental results of rescor…

Computational studies of biomolecular screening and interactions

2015

Controlling Oxidative Addition and Reductive Elimination at Tin(I) via Hemi-Lability.

2021

We report on the synthesis of a distannyne supported by a pincer ligand bearing pendant amine donors that is capable of reversibly activating E–H bonds at one or both of the tin centres through dissociation of the hemi-labile N–Sn donor/acceptor interactions. This chemistry can be exploited to sequentially (and reversibly) assemble mixed-valence chains of tin atoms of the type ArSn{Sn(Ar)H} n SnAr ( n = 1, 2). The experimentally observed (decreasing) propensity towards chain growth with increasing chain length can be rationalized both thermodynamically and kinetically by the electron-withdrawing properties of the –Sn(Ar)H– backbone units generated via oxidative addition. peerReviewed

Oxygen Transfer from Trimethylamine N-oxide to CuI Complexes Supported by Pentanitrogen Ligands

2020

[N,N-bis(1-methyl-2-benzimidazolyl)methyl-N-(bis-2-pyridylmethyl)amine] ( L 1 ) and [N,N-bis(2-quinolylmethyl)-N-bis(2-pyridyl)methylamine] ( L 2 ) were employed to prepare Cu II  and Cu I  complexes for spectroscopic and structural characterization. [ L 1 Cu II (H 2 O)](NO 3 ) 2 and [ L 2 Cu II (NO 3 )]NO 3 have Jahn-Teller distorted octahedral geometries, and give rise to isotropic EPR spectra in frozen solution. [ L 1 Cu I (CH 3 CN)]OTf and [ L 2 Cu I (CH 3 CN)]OTf have distorted trigonal bipyramidal and tetrahedral solid-state structures, respectively. The N-donors display labile behavior in solution, based on variable-temperature 1 H NMR studies. Addition of trimethylamine N-oxide (Me …

Noncovalent axial I∙∙∙Pt∙∙∙I interactions in platinum(II) complexes strengthen in the excited state

2021

Abstract Coordination compounds of platinum(II) participate in various noncovalent axial interactions involving metal center. Weakly bound axial ligands can be electrophilic or nucleophilic; however, interactions with nucleophiles are compromised by electron density clashing. Consequently, simultaneous axial interaction of platinum(II) with two nucleophilic ligands is almost unprecedented. Herein, we report structural and computational study of a platinum(II) complex possessing such intramolecular noncovalent I⋅⋅⋅Pt⋅⋅⋅I interactions. Structural analysis indicates that the two iodine atoms approach the platinum(II) center in a “side‐on” fashion and act as nucleophilic ligands. According to c…

Iodine(I) and Silver(I) Complexes Incorporating 3-Substituted Pyridines

2023

Building upon the first report of a 3-acetaminopyridine-based iodine(I) complex (1b) and its unexpected reactivity toward tBuOMe, several new 3-substituted iodine(I) complexes (2b–5b) have been synthesized. The iodine(I) complexes were synthesized from their analogous silver(I) complexes (2a–5a) via a silver(I) to iodine(I) cation exchange reaction, incorporating functionally related substituents as 3-acetaminopyridine in 1b; 3-acetylpyridine (3-Acpy; 2), 3-aminopyridine (3-NH2py; 3), and 3-dimethylaminopyridine (3-NMe2py; 4), as well as the strongly electron-withdrawing 3-cyanopyridine (3-CNpy; 5), to probe the possible limitations of iodine(I) complex formation. The individual properties …

Photodynamics studies of ligand-protected gold nanoclusters by using ultrafast transient infrared spectroscopy

2015

Highly monodisperse samples of three ligand-protected gold nanoclusters Au102(pMBA)44, Au144(SC2H4Ph)60, and a cluster tentatively identified as Au130(pMBA)50, were characterized by UV/vis and infrared spectroscopy, and their photodynamics was studied by transient absorption spectroscopy. The dynamics study for each cluster was performed by electronically exciting the cluster with a pump pulse in the visible or near infrared region and by monitoring the transient absorption of vibrational modes of the ligands with a mid-IR probe pulse. The photodynamics studies were used to determine the molecular or metallic behavior of the cluster, and also to gain important size dependent information abo…

Influencing the self‐sorting behavior of [2.2]paracyclophane based ligands by introducing isostructural binding motifs

2020

Two isostructural ligands with either nitrile ( L nit ) or isonitrile ( L iso ) moieties directly connected to a [2.2]paracyclophane backbone with pseudo‐meta substitution pattern have been synthesized. The ligand itself ( L nit ) or its precursors ( L iso ) were resolved via HPLC on a chiral stationary phase and the absolute configuration of the isolated enantiomers was assigned by XRD analysis and/or by comparison of quantum‐chemical simulated and experimental ECD‐spectra. Surprisingly, the resulting metallosupramolecular aggregates formed in solution upon coordination of [(dppp)Pd(OTf) 2 ] differ in their composition: whereas L nit forms dinuclear complexes L iso exclusively forms trinuc…

Weak Interactions between Trivalent Pnictogen Centers: Computational Analysis of Bonding in Dimers X3E···EX3 (E = Pnictogen, X = Halogen)

2009

The nature of weak interactions in dimers X3E···EX3 (E = N−Bi, X = F−I) was investigated by wave function and density functional theory (DFT)-based methods. Out of the 20 systems studied, 10 are found to be bound at the CP-MP2 and LMP2 levels of theory. Detailed partition of the interaction energy into different components revealed that dispersion is the primary force holding the dimers together but there also exists an important ionic component whose contribution increases with increasing halogen size. As expected, standard density functionals fail to describe bonding in the studied systems. However, the performance of DFT methods can be easily improved via empirical dispersion correction …