Artículo

Capece, L.; Arrar, M.; Roitberg, A.E.; Yeh, S.-R.; Marti, M.A.; Estrin, D.A. "Substrate stereo-specificity in tryptophan dioxygenase and indoleamine 2,3-dioxygenase" (2010) Proteins: Structure, Function and Bioinformatics. 78(14):2961-2972
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Abstract:

The first and rate-limiting step of the kynurenine pathway, in which tryptophan (Trp) is converted to N-formylkynurenine is catalyzed by two heme-containing proteins, Indoleamine 2,3-dioxygenase (IDO), and Tryptophan 2,3-dioxygenase (TDO). In mammals, TDO is found exclusively in liver tissue, IDO is found ubiquitously in all tissues. IDO has become increasingly popular in pharmaceutical research as it was found to be involved in many physiological situations, including immune escape of cancer. More importantly, small-molecule inhibitors of IDO are currently utilized in cancer therapy. One of the main concerns for the design of human IDO (hIDO) inhibitors is that they should be selective enough to avoid inhibition of TDO. In this work, we have used a combination of classical molecular dynamics (MD) and hybrid quantum-classical (QM/MM) methodologies to establish the structural basis that determine the differences in (a) the interactions of TDO and IDO with small ligands (CO/O 2) and (b) the substrate stereo-specificity in hIDO and TDO. Our results indicate that the differences in small ligand bound structures of IDO and TDO arise from slight differences in the structure of the bound substrate complex. The results also show that substrate stereospecificity of TDO is achieved by the perfect fit of L-Trp, but not D-Trp, which exhibits weaker interactions with the protein matrix. For hIDO, the presence of multiple stable binding conformations for L/D-Trp reveal the existence of a large and dynamic active site. Taken together, our data allow determination of key interactions useful for the future design of more potent hIDO-selective inhibitors. © 2010 Wiley-Liss, Inc.

Registro:

Documento: Artículo
Título:Substrate stereo-specificity in tryptophan dioxygenase and indoleamine 2,3-dioxygenase
Autor:Capece, L.; Arrar, M.; Roitberg, A.E.; Yeh, S.-R.; Marti, M.A.; Estrin, D.A.
Filiación:Departamento de Química Inorgánica, Analítica y Química Física, INQUIMAE-CONICET, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Ciudad Universitaria, Pabellón 2, Buenos Aires, C1428EHA, Argentina
Department of Chemistry and Quantum Theory Project, University of Florida, Box 118435, Gainesville, FL 32611, United States
Department of Physiology and Biophysics, Albert Einstein College of Medicine, 1300 Morris Park Avenue, Bronx, NY 10461, United States
Departamento de Química Biológica, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Ciudad Universitaria, Pabellón 2, Buenos Aires, C1428EHA, Argentina
Palabras clave:Affinity; CO; Dioxygenase; IDO; Inhibitors; Molecular dynamics; Oxygen; Structure; TDO; carbon monoxide; indoleamine 2,3 dioxygenase; oxygen; tryptophan 2,3 dioxygenase; article; enzyme binding; enzyme specificity; enzyme substrate complex; molecular dynamics; molecular interaction; priority journal; protein conformation; quantum chemistry; stereospecificity; Binding Sites; Catalysis; Humans; Indoleamine-Pyrrole 2,3,-Dioxygenase; Models, Molecular; Molecular Dynamics Simulation; Protein Conformation; Stereoisomerism; Substrate Specificity; Tryptophan; Tryptophan Oxygenase; Mammalia
Año:2010
Volumen:78
Número:14
Página de inicio:2961
Página de fin:2972
DOI: http://dx.doi.org/10.1002/prot.22819
Título revista:Proteins: Structure, Function and Bioinformatics
Título revista abreviado:Proteins Struct. Funct. Bioinformatics
ISSN:08873585
CAS:carbon monoxide, 630-08-0; oxygen, 7782-44-7; tryptophan 2,3 dioxygenase, 9014-51-1; Indoleamine-Pyrrole 2,3,-Dioxygenase, 1.13.11.42; Tryptophan, 73-22-3; Tryptophan Oxygenase, 1.13.11.11
Registro:https://bibliotecadigital.exactas.uba.ar/collection/paper/document/paper_08873585_v78_n14_p2961_Capece

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Citas:

---------- APA ----------
Capece, L., Arrar, M., Roitberg, A.E., Yeh, S.-R., Marti, M.A. & Estrin, D.A. (2010) . Substrate stereo-specificity in tryptophan dioxygenase and indoleamine 2,3-dioxygenase. Proteins: Structure, Function and Bioinformatics, 78(14), 2961-2972.
http://dx.doi.org/10.1002/prot.22819
---------- CHICAGO ----------
Capece, L., Arrar, M., Roitberg, A.E., Yeh, S.-R., Marti, M.A., Estrin, D.A. "Substrate stereo-specificity in tryptophan dioxygenase and indoleamine 2,3-dioxygenase" . Proteins: Structure, Function and Bioinformatics 78, no. 14 (2010) : 2961-2972.
http://dx.doi.org/10.1002/prot.22819
---------- MLA ----------
Capece, L., Arrar, M., Roitberg, A.E., Yeh, S.-R., Marti, M.A., Estrin, D.A. "Substrate stereo-specificity in tryptophan dioxygenase and indoleamine 2,3-dioxygenase" . Proteins: Structure, Function and Bioinformatics, vol. 78, no. 14, 2010, pp. 2961-2972.
http://dx.doi.org/10.1002/prot.22819
---------- VANCOUVER ----------
Capece, L., Arrar, M., Roitberg, A.E., Yeh, S.-R., Marti, M.A., Estrin, D.A. Substrate stereo-specificity in tryptophan dioxygenase and indoleamine 2,3-dioxygenase. Proteins Struct. Funct. Bioinformatics. 2010;78(14):2961-2972.
http://dx.doi.org/10.1002/prot.22819