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11 documentos corresponden a la consulta.
Palabras contadas: conformations: 14
Ellena, J. - Punte, G. - Nudelman, N.S.
Acta Crystallogr Sect C Cryst Struct Commun 1996;52(11):2929-2932
1996

Descripción: The crystal structure of the title compound, C12H8-N2O6S, has been determined by single-crystal X-ray diffraction. The compound crystallizes in the noncentrosymmetric P21 space group. The substituted aromatic ring has a slightly deformed boat conformation. The ο-NO2 and p-NO2 groups are twisted out of the plane of the phenyl ring. The unsubstituted aromatic ring is planar and the dihedral angle between the mean plane of the rings is 71.1 (2)○. Short C - H⋯O intermolecular contacts stabilize the three-dimensional structure.
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Alcoba, D.R. - Bochicchio, R.C. - Lain, L. - Torre, A.
J Chem Phys 2010;133(14)
2010

Descripción: In this paper we propose a functional of the many-body cumulant of the second-order reduced density matrix within the spin-free formalism of quantum chemistry which quantifies the idea of electron correlation and allows one to detect spin entanglement. Its properties are rigorously stated and discussed for spin-adapted pure states. Numerical determinations are performed for both equilibrium conformations and dissociation processes in molecular systems. © 2010 American Institute of Physics.
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Contreras, R.H. - Biekofsky, R.R. - De Kowalewski, D.G. - Orendt, A.M. - Facelli, J.C.
Journal of Physical Chemistry 1993;97(1):91-93
1993

Descripción: In order to increase the understanding of the interactions which define the planar conformation of the methoxy group with respect to the aryl ring in methyl aryl ethers and the effect these interactions have on the methoxy NMR parameters, 17O and 13C spectra were measured and ab initio optimized geometries were calculated for three different conformations of the methoxy group in 2-methoxy-5-X-pyridines (X = H, NO2, and NH2). 17O and 13C chemical shifts were also calculated using the LORG approach. It was found that, contrary to what has been commonly assumed, the oxygen and the carbon of the methoxy group are deshielded when the electronic resonance interaction is increased. Therefore, the large 13C deshielding effect observed for a conformation with an out-of-plane methoxy group in aryl methyl ethers and related compounds has to be attributed to the inhibition of the attractive van der Waals forces between the methyl moiety and the aromatic ortho-cis carbon atom. © 1993 American Chemical Society.
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Tipo de documento: info:ar-repo/semantics/artículo

Turjanski, A. - Chaia, Z.D. - Doctorovich, F. - Estrin, D. - Rosenstein, R. - Piro, O.E.
Acta Crystallogr Sect C Cryst Struct Commun 2000;56(6):682-683
2000

Descripción: The title compound, N-[2-(5-methoxy-1-nitroso-1H-indol-3-yl)ethyl]acetamide, C13H15N3O3, an N-nitroso derivative of melatonin, crystallizes in the monoclinic C2/c space group. The molecules are arranged in such a way that the aromatic rings are in a planar conformation, with the alkylamide side chains in a different plane, at a dihedral angle of 108.60 (6)°. The alkylamide chains are interconnected by hydrogen bonds, constituting an infinite array.
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Boechi, L. - Arrar, M. - Martí, M.A. - Olson, J.S. - Roitberg, A.E. - Estrin, D.A.
J. Biol. Chem. 2013;288(9):6754-6762
2013

Descripción: Since the elucidation of the myoglobin (Mb) structure, a histidine residue on the E helix (His-E7) has been proposed to act as a gate with an open or closed conformation controlling access to the active site. Although it is believed that at low pH, the His-E7 gate is in its open conformation, the full relationship between the His-E7 protonation state, its conformation, and ligand migration in Mb is hotly debated. We used molecular dynamics simulations to first address the effect of His-E7 protonation on its conformation. We observed the expected shift from the closed to the open conformation upon protonation, but more importantly, noted a significant difference between the conformations of the two neutral histidine tautomers. We further computed free energy profiles for oxygen migration in each of the possible His-E7 states as well as in two instructive Mb mutants: Ala-E7 and Trp-E7. Our results show that even in the closed conformation, the His-E7 gate does not create a large barrier to oxygen migration and permits oxygen entry with only a small rotation of the imidazole side chain and movement of the E helix. We identify, instead, a hydrophobic site in the E7 channel that can accommodate an apolar diatomic ligand and enhances ligand uptake particularly in the open His-E7 conformation. This rate enhancement is diminished in the closed conformation. Taken together, our results provide a new conceptual framework for the histidine gate hypothesis. © 2013 by The American Society for Biochemistry and Molecular Biology, Inc.
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Aran, M. - Ferrero, D. - Wolosiuk, A. - Mora-García, S. - Wolosiuk, R.A.
J. Biol. Chem. 2011;286(26):23441-23451
2011

Descripción: 2-Cys peroxiredoxins (2-Cys Prxs) are ubiquitous peroxidases with important roles in cellular antioxidant defense and hydrogen peroxide-mediated signaling. Post-translational modifications of conserved cysteines cause the transition from low to high molecular weight oligomers, triggering the functional change from peroxidase to molecular chaperone. However, it remains unclear how non-covalent interactions of 2-Cys Prx with metabolites modulate the quaternary structure. Here, we disclose that ATP and Mg2+ (ATP/Mg) promote the self-polymerization of chloroplast 2-Cys Prx (polypeptide 23.5 kDa) into soluble higher order assemblies (>2 MDa) that proceed to insoluble aggregates beyond 5mMATP. Remarkably, the withdrawal of ATP or Mg2+ brings soluble oligomers and insoluble aggregates back to the native conformation without compromising the associated functions. As confirmed by transmission electron microscopy, ATP/Mg drive the toroid-like decamers (diameter 13 nm) to the formation of large sphere-like particles (diameter ∼30 nm). Circular dichroism studies on ATP-labeled 2-Cys Prx reveal that ATP/Mg enhance the proportion of β-sheets with the concurrent decrease in the content of α-helices. In line with this observation, the formation of insoluble aggregates is strongly prevented by 2,2,2-trifluoroethanol, a cosolvent employed to induce α-helical conformations. We further find that the response of self-polymerization to ATP/Mg departs abruptly from that of the associated peroxidase and chaperone activities when two highly conserved residues, Arg129 and Arg152, are mutated. Collectively, our data uncover that non-covalent interactions of ATP/Mg with 2-Cys Prx modulate dynamically the quaternary structure, thereby coupling the non-redox chemistry of cell energy with redox transformations at cysteine residues. © 2011 by The American Society for Biochemistry and Molecular Biology, Inc.
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Ballicora, M.A. - Wolosiuk, R.A.
Eur. J. Biochem. 1994;222(2):467-474
1994

Descripción: To characterize the mechanism of chloroplast fructose‐1,6‐bisphosphatase activation, we have examined kinetic and structural changes elicited by protein perturbants and reductants. At variance with its well‐known capacity for enzyme inactivation, 150 mM sodium trichloroacetate yielded an activatable chloroplast fructose‐1,6‐bisphosphatase in the presence of 1.0 mM fructose 1,6‐bisphosphate and 0.1 mM Ca2+. Other sugar bisphosphates did not replace fructose 1,6‐bisphosphate whereas Mg2+ and Mn2+ were functional in place of Ca2+. Variations of the emission fluorescence of intrinsic fluorophores and a noncovalently bound extrinsic probe [2‐(P‐toluidinyl)naphthalene‐6‐sulfonate] indicated the presence of conformations different from the native form. A similar conclusion was drawn from the analysis of absorption spectra by means of fourth‐derivative spectrophotometry. The effect of these conformational changes on the reductive process was studied by subsequently incubating the enzyme with dithiothreitol. The reaction of chloroplast fructose‐1,6‐bisphosphatase with dithiothreitol was accelerated 13‐fold by the chaotropic anion: second‐order rate constants were 48.1 M−1· min−1 and 3.7 M−1· min−1 in the presence and in the absence of trichloroacetate, respectively. Thus, the enhancement of the reductive activation by compounds devoid of redox activity illustrated that the modification of intramolecular noncovalent interactions of chloroplast fructose‐1,6‐bisphosphatase plays an essential role in the conversion of enzyme disulfide bonds to sulfhydryl groups. In consequence, a conformational change would operate concertedly with the reduction of disulfide bridges in the light‐dependent activation mediated by the ferredoxin–thioredoxin system. Copyright © 1994, Wiley Blackwell. All rights reserved
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Castro, M.A. - Chaia, Z.D. - Piro, O.E. - Cukiernik, F.D. - Castellano, E.E. - Rusjan, M.
Acta Crystallogr Sect C Cryst Struct Commun 2002;58(7):m393-m395
2002

Descripción: The title compound, tetrakis(μ-3,4,5-triethoxybenzoato κ 2 O:O′)bis[(pyrazine-κN)rhodium(II)](Rh-Rh). [Rh 2 (C 13 -H 17 O 5 ) 4 (C 4 H 4 N 2 ) 2 ], crystallizes on an inversion centre in the triclinic space group P1̄. The equatorial carboxylate ligands bridge the two Rh 11 atoms, giving a binuclear lantern-like structure. The pyrazine molecules occupy the two axial coordination sites. The phenyl rings are titled by ca 10° with respect to the attached carboxylate groups. The pyrazine planes have a torsion angle of ca 19° around the Rh-N bond with respect to the plane of the nearer carboxylate group and are not coplanar with the Rh-Rh bond.
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Marcelli, A. - Abbruzzetti, S. - Bustamante, J.P. - Feis, A. - Bonamore, A. - Boffi, A. - Gellini, C. - Salvi, P.R. - Estrin, D.A. - Bruno, S. - Viappiani, C. - Foggi, P.
PLoS ONE 2012;7(7)
2012

Descripción: CO recombination kinetics has been investigated in the type II truncated hemoglobin from Thermobifida fusca (Tf-trHb) over more than 10 time decades (from 1 ps to ~100 ms) by combining femtosecond transient absorption, nanosecond laser flash photolysis and optoacoustic spectroscopy. Photolysis is followed by a rapid geminate recombination with a time constant of ~2 ns representing almost 60% of the overall reaction. An additional, small amplitude geminate recombination was identified at ~100 ns. Finally, CO pressure dependent measurements brought out the presence of two transient species in the second order rebinding phase, with time constants ranging from ~3 to ~100 ms. The available experimental evidence suggests that the two transients are due to the presence of two conformations which do not interconvert within the time frame of the experiment. Computational studies revealed that the plasticity of protein structure is able to define a branched pathway connecting the ligand binding site and the solvent. This allowed to build a kinetic model capable of describing the complete time course of the CO rebinding kinetics to Tf-trHb. © 2012 Marcelli et al.
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Colón-González, F. - Leskow, F.C. - Kazanietz, M.G.
J. Biol. Chem. 2008;283(50):35247-35257
2008

Descripción: Chimaerins are a family of GTPase activating proteins (GAPs) for the small G-protein Rac that have gained recent attention due to their important roles in development, cancer, neuritogenesis, and T-cell function. Like protein kinase C isozymes, chimaerins possess a C1 domain capable of binding phorbol esters and the lipid second messenger diacylglycerol (DAG) in vitro. Here we identified an autoinhibitory mechanism in α2-chimaerin that restricts access of phorbol esters and DAG, thereby limiting its activation. Although phorbol 12-myristate 13-acetate (PMA) caused limited translocation of wild-type α2-chimaerin to the plasma membrane, deletion of either N- or C-terminal regions greatly sensitize α2-chimaerin for intracellular redistribution and activation. Based on modeling analysis that revealed an occlusion of the ligand binding site in the α2-chimaerin C1 domain, we identified key amino acids that stabilize the inactive conformation. Mutation of these sites renders α2-chimaerin hypersensitive to C1 ligands, as reflected by its enhanced ability to translocate in response to PMA and to inhibit Rac activity and cell migration. Notably, in contrast to PMA, epidermal growth factor promotes full translocation of α2-chimaerin in a phospholipase C-dependent manner, but not of a C1 domain mutant with reduced affinity for DAG (P216A-α2- chimaerin). Therefore, DAG generation and binding to the C1 domain are required but not sufficient for epidermal growth factor-induced α2-chimaerin membrane association. Our studies suggest a role for DAG in anchoring rather than activation of α2-chimaerin. Like other DAG/phorbol ester receptors, including protein kinase C isozymes, α2-chimaerin is subject to autoinhibition by intramolecular contacts, suggesting a highly regulated mechanism for the activation of this Rac-GAP. © 2008 by The American Society for Biochemistry and Molecular Biology, Inc.
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Chemes, L.B. - Glavina, J. - Alonso, L.G. - Marino-Buslje, C. - de Prat-Gay, G. - Sánchez, I.E.
PLoS ONE 2012;7(10)
2012

Descripción: In the present work, we have used the papillomavirus E7 oncoprotein to pursue structure-function and evolutionary studies that take into account intrinsic disorder and the conformational diversity of globular domains. The intrinsically disordered (E7N) and globular (E7C) domains of E7 show similar degrees of conservation and co-evolution. We found that E7N can be described in terms of conserved and coevolving linear motifs separated by variable linkers, while sequence evolution of E7C is compatible with the known homodimeric structure yet suggests other activities for the domain. Within E7N, inter-residue relationships such as residue co-evolution and restricted intermotif distances map functional coupling and co-occurrence of linear motifs that evolve in a coordinate manner. Within E7C, additional cysteine residues proximal to the zinc-binding site may allow redox regulation of E7 function. Moreover, we describe a conserved binding site for disordered domains on the surface of E7C and suggest a putative target linear motif. Both homodimerization and peptide binding activities of E7C are also present in the distantly related host PHD domains, showing that these two proteins share not only structural homology but also functional similarities, and strengthening the view that they evolved from a common ancestor. Finally, we integrate the multiple activities and conformations of E7 into a hierarchy of structure-function relationships. © 2012 Chemes et al.
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