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Publications since 2004. / Publicaciones desde 2004. (PubMed/Medline)
(A: article/artículo; R: review/revisión; C: book chapter/capítulo de libro; O: other/otros)
2012:
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(A).-
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Martín-García, F., Salvarelli, E., Mendieta-Moreno, J.I., Vicente, M., Mingorance, J., Mendieta, J. & Gómez-Puertas, P.
(2012). Molecular dynamics simulation of GTPase activity in polymers of the cell division protein FtsZ.
FEBS Letters 586, 1236–1239.
[PubMed]
[PDF]
[Supp. Inf. PDF]
[Supp. video. AVI]
[Supp. video. MOV -HD-]
[http://dx.doi.org/10.1016/j.febslet.2012.03.042]
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(A).-
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Martín-García, F., Mendieta-Moreno, J.I., Mendieta, J. & Gómez-Puertas, P.
(2012). Molecular dynamics analysis of conformational change of paramyxovirus F protein during the initial steps of membrane fusion.
Biochemical and Biophysical Research Communications 420, 42-47.
[PubMed]
[PDF]
[Supp. Inf. PDF]
[http://dx.doi.org/10.1016/j.bbrc.2012.02.112]
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(A).-
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Martín-García, F., Mendieta-Moreno, J.I., López-Viñas, E., *Gómez-Puertas, P. & *Mendieta, J. (* Co-last authors)
(2012). The Role of Gln(61) in HRas GTP Hydrolysis: A Quantum Mechanics/Molecular Mechanics Study.
Biophysical Journal 102, 152-157.
[PubMed]
[PDF]
[Supp. Inf. PDF]
[Supp. video. AVI]
[Supp. video. AVI -HD-]
[http://dx.doi.org/10.1016/j.bpj.2011.11.4005]
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2011:
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(A).-
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López, E., Wesselink, J.J., López, I., Mendieta, J., *Gómez-Puertas, P. & *Muñoz, S.R. (* Co-last authors)
(2011). Technical phosphoproteomic and bioinformatic tools useful in cancer research.
Journal of Clinical Bioinformatics 1, 26.
[PubMed]
[PDF]
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(A).-
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Puisac, B., Ramos, M., Arnedo, M., Menao, S., Gil-Rodríguez, M.C., Teresa-Rodrigo, M.E., Pié, A., de Karam, J.C.,
Wesselink, J.J., Giménez, I., Ramos, F.J., Casals, N., Gómez-Puertas, P., Hegardt, F.G. & Pié, J.
(2011). Characterization of splice variants of the genes encoding human mitochondrial HMG-CoA lyase and HMG-CoA synthase,
the main enzymes of the ketogenesis pathway.
Molecular Biology Reports 39, 4777-4785.
[PubMed]
[PDF]
[http://dx.doi.org/10.1007/s11033-011-1270-8]
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(A).-
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Kisic, M., Matamoros, T., Nevot, M., Mendieta, J., Martínez-Picado, J., Martínez, M.A. & Menéndez-Arias, L.
(2011). Thymidine analogue excision and discrimination modulated by mutational complexes including single amino acid deletions of
Asp-67 or Thr-69 in HIV-1 reverse transcriptase.
Journal of Biological Chemistry 286, 20615-20624.
[PubMed]
[PDF]
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(A).-
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Matos, R.G., Barbas, A, Gómez-Puertas, P. & Arraiano, C.M.
(2011). Swapping the domains of exoribonucleases RNase II and RNase R: conferring upon RNase II the ability to degrade dsRNA.
PROTEINS: Structure, Function, and Bioinformatics 79, 1853-1867.
[PubMed]
[PDF]
[Supp. Inf. PDF]
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(A).-
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Oroz, J., Valbuena, A., Vera, A.M., Mendieta, J., Gómez-Puertas, P. & Carrión-Vázquez M.
(2011). Nanomechanics of the cadherin ectodomain: 'canalization' by Ca2+ binding results in a new mechanical element.
Journal of Biological Chemistry 286, 9405-9418.
[PubMed]
[PDF]
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(R).-
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López, E., Matthiesen, R., Mendieta, J., Wesselink, J.J., Gómez-Puertas, P. & Ferreira, A. (2011). Functional phosphoproteomics
tools for current immunological disorders research.
Journal of Integrated -OMICS 1, 1-16.
[Journal]
[PDF]
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(A).-
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Hurtado, C., Bustos, M.J., Granja, A.G., de León, P., Sabina, P., López-Vinas, E., Gómez-Puertas, P.,
Revilla, Y. & Carrascosa, A.L. (2011). The African swine fever virus lectin
EP153R modulates the surface membrane expression of MHC class I antigens.
Archives of Virology 156, 219-234.
[PubMed]
[PDF]
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2010:
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(R).-
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Mingorance, J., Rivas, G., Vélez, M., Gómez-Puertas, P. & Vicente, M. (2010).
Strong FtsZ is with the force: mechanisms to constrict bacteria.
Trends in Microbiology 18, 348-356.
[PubMed]
[PDF]
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(A).-
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Magro, M., Andreu, D., Gómez-Puertas, P., Melero, J.A. & Palomo, C. (2010). Neutralization of Human Respiratory
Syncytial Virus Infectivity by Antibodies and Low Molecular Weight Compounds Targeted Against the Fusion (F) Glycoprotein.
Journal of Virology 84, 7970-7982.
[PubMed]
[PDF]
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(R).-
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Romanelli, V., Belinchón, A., Benito-Sanz, S., Martínez-Glez, V., Gracia-Bouthelier, R., Heath, K.E., Campos-Barros, A.,
García-Miñaur, S., Fernández, L., Meneses, H., López-Siguero, J.P., Guillén-Navarro, E., Gómez-Puertas, P.,
Wesselink, J.J., Mercado, G., Esteban-Marfil, V., Palomo, R., Mena, R., Sánchez, A., del Campo, M. & Lapunzina, P. (2010).
CDKN1C (p57Kip2) Analysis in Beckwith-Wiedemann syndrome (BWS) Patients: Genotype-Phenotype Correlations, Novel Mutations, and Polymorphisms.
American Journal of Medical Genetics Part A 152A, 1390-1397.
[PubMed]
[PDF]
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(A).-
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Pié, J., Gil-Rodríguez, M.C., Ciero, M., López-Viñas, E., Ribate, M.P., Arnedo, M.,
Deardorff, M.A., Puisac, B., Legarreta, J., de Karam, J.C., Rubio, E., Bueno, I., Baldellou, A., Calvo, M.T., Casals, N., Olivares, J.L.,
Losada, A., Hegardt, F.G., Krantz, I.D., Gómez-Puertas, P. & Ramos F.J. (2010). Mutations and variants in the cohesion factor genes
NIPBL, SMC1A, and SMC3 in a cohort of 30 unrelated patients with Cornelia de Lange syndrome.
American Journal of Medical Genetics. Part A. 152A, 924-929.
[PubMed]
[PDF]
[Suppl.Material. PDF]
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2009:
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(A).-
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Mendieta, J., Rico, A.I., López-Viñas, E., Vicente, M., Mingorance, J. &
Gómez-Puertas, P. (2009). Structural and Functional Model for Ionic (K+/Na+) and pH Dependence of GTPase
Activity and Polymerization of FtsZ, the Prokaryotic Ortholog of Tubulin.
Journal of Molecular Biology 390, 17-25.
[PubMed]
[PDF]
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(A).-
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Barbas, A., Matos, R.G., Amblar, M., López-Viñas, E., Gómez-Puertas, P.
& Arraiano, C.M. (2009). Determination of key residues for catalysis and RNA-cleavage specificity: one mutation
turns RNase II into a "super"-enzyme.
Journal of Biological Chemistry 284, 20486-20498.
[PubMed]
[PDF]
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(A).-
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Menao, S., López-Viñas, E., Mir, C., Puisac, B., Gratacós, E., Arnedo, M., Carrasco, P.,
Moreno, S., Ramos, M., Gil, M.C., Pié, A., Ribes, A., Pérez-Cerda, C., Ugarte, M., Clayton, P.T., Korman, S.H., Serra, D.,
Asins, G., Ramos, F.J., Gómez-Puertas, P., Hegardt, F.G., Casals, N. & Pié, J. (2009). Ten novel HMGCL mutations
in 24 patients of different origin with 3-hydroxy-3-methyl-glutaric aciduria.
Human Mutation 30, E520-9.
[PubMed]
[PDF]
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(A).-
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Mera, P., Bentebibel, A., López-Viñas, E., Cordente, A.G., Gurunathan, C., Sebastián, D., Ariza, X.,
Gómez-Puertas, P., Asins, G., Serra, D., García, J. & Hegardt, F.G. (2009). C75 is Converted to C75-CoA in the Hypothalamus, where it
Inhibits Carnitine Palmitoyltransferase 1 and Decreases Food Intake and Body Weight.
Biochemical Pharmacology 77, 1084-1095.
[PubMed]
[PDF]
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2008:
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(A).-
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Cuellar, J., Martin-Benito, J., Scheres, S.H.W., Sousa, R., Moro, F.,
Lopez-Viñas, E., Gomez-Puertas, P., Muga, A., Carrascosa, J.L. & Valpuesta, J.M. (2008).
The structure of a CCT:Hsc70NBD complex suggests a mechanism for Hsp70 delivery of substrates to the chaperonin.
Nature Structural & Molecular Biology 15, 858-864.
[PubMed]
[PDF]
[Suppl.Info-PDF]
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(A).-
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Kisic, M., Mendieta, J., Puertas, M.C., Parera, M., Martínez, M.A., Martínez-Picado, J.
& Menéndez-Arias, L. (2008). Mechanistic Basis of Zidovudine Hypersusceptibility and Lamivudine
Resistance Conferred by the Deletion of Codon 69 in the HIV-1 Reverse Transcriptase Coding Region.
Journal of Molecular Biology 382, 327-341.
[PubMed]
[PDF]
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(A).-
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Barbas, A., Matos, R.G., Amblar, M., López-Viñas, E., Gómez-Puertas, P. & Arraiano, C.M. (2008).
New insights into the mechanism of RNA degradation by ribonuclease II: identification of the residue responsible for setting the RNase II end-product.
Journal of Biological Chemistry 283, 13070-13076.
[PubMed]
[PDF]
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(A).-
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Llorente, M.T., Taylor, I.A., López-Viñas, E., Gómez-Puertas, P., Calder, L.J., García-Barreno, B. & Melero, J.A.
(2008). Structural properties of the human respiratory syncytial virus P protein: Evidence for an elongated homotetrameric molecule that is the smallest
orthologue within the family of paramyxovirus polymerase co-factors. PROTEINS: Structure, Function and Bioinformatics 72, 946-958.
[PubMed]
[PDF]
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(A).-
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Asenjo, A., Mendieta, J., Gómez-Puertas, P. & Villanueva, N.
(2008). Residues in human Respiratory syncytial virus P protein that are essential for its activity on RNA viral synthesis.
Virus Research 132, 160-173.
[PubMed]
[PDF]
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(A).-
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Mendieta, J., Cases-González, C.E., Matamoros, T., Ramírez, G. & Menéndez-Arias, L.
(2008). A Mg(2+)-induced conformational switch rendering a competent DNA polymerase catalytic complex.
PROTEINS: Structure, Function and Bioinformatics 71, 565-574.
[PubMed]
[PDF]
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(A).-
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López-Viñas, E.*, Atrian, S.*, Gomez-Puertas, P.,
Chabás, A., Vilageliu, L. & Grinberg, D. (2008). An evolutionary and structure-based docking model for
glucocerebrosidase-saposin C and glucocerebrosidase-substrate
interactions. Relevance for Gaucher disease. PROTEINS: Structure, Function and Bioinformatics 70, 882-891.
[PubMed]
[PDF]
(* Co-first authors)
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2007:
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(A).-
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Blas-Galindo, E., Cava, F., López-Viñas, E., Mendieta, J. & Berenguer, J.
(2007). Use of a dominant rpsL allele conferring streptomycin dependence for positive and negative selection
in Thermus thermophilus. Applied and Environmental Microbiology 73, 5138-5145.
[PubMed]
[PDF]
[Suppl. Mat.]
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(R).-
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Pié J., López-Viñas, E., Puisac, B., Menao, S., Pié A., Casale, C.,
Ramos, F., Hegardt, F.G., Gómez-Puertas, P. & Casals, N. (2007). Molecular genetics of HMG-CoA lyase deficiency.
Molecular Genetics and Metabolism 92, 198-209.
[PubMed]
[PDF]
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(A).-
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López-Viñas, E., Bentebibel, A., Gurunathan, C., Morillas, M., De Arriaga, D.,
Serra, D., Asins, G., Hegardt, F. & Gómez-Puertas, P. (2007). Definition by functional and
structural analysis of two malonyl-CoA sites in carnitine palmitoyltransferase 1A. Journal of Biological Chemistry 282, 18212-18224.
[PubMed]
[PDF]
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(A).-
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Mendieta, J., Pérez-Lago, J., Salas, M. & Camacho, A.
(2007).
DNA sequence-specific recognition by a transcripcional regulator requires indirect readout of A-tracts.
Nucleic Acids Research 35, 3252-3261.
[PubMed]
[PDF]
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(A).-
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Carrasco, P., Menao, S., López-Viñas, E., Santpere,
G., Clotet, J., Sierra, A.Y., Gratacos, E., Puisac, B., Gomez-Puertas,
P., Hegardt, F.G., Pie, J. & Casals, N. (2007). C-Terminal End and
Aminoacid Lys48 in HMG-Coa Lyase Are Involved in Substrate Binding and
Enzyme Activity. Molecular Genetics and Metabolism 91, 120-127.
[PubMed]
[PDF]
(cover paper / artículo de portada). |
| (A).- |
Agirrezabala, X., Velázquez-Muriel, J.A., Gomez-Puertas,
P., Scheres, S.H.W., Carazo, J.M., & Carrascosa, J.L. (2007). Quasi-Atomic
Model of Bacteriophage T7 Procapsid Shell: Insights into the Structure
and Evolution of a Basic Fold. Structure 15, 461-472.
[PubMed]
[PDF]
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| (A).- |
Cava, F., Laptenko, O., Borukhov, S., Chahlafi, Z., Blas-Galindo,
E., Gomez-Puertas, P., & Berenguer, J. (2007). Control of the Respiratory
Metabolism of Thermus thermophilus by the Conjugative Respiration
Element NCE.
Molecular Microbiology 64, 630-646.
[PubMed]
[PDF]
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(A).-
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Contreras, L., Gomez-Puertas, P., Iijima, M., Kobayashi, K., Saheki,
T., & Satrústegui, J. (2007). Ca2+ Activation Kinetics of the
Two Aspartate-glutamate Mitochondrial Carriers Aralar and Citrin: Role
in Heart Malate-aspartate NADH Shuttle. Journal of Biological Chemistry
282, 7098-7106.
[PubMed]
[PDF]
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| (A).- |
Amblar, M., Barbas, A., Gomez-Puertas, P., & Arraiano, C. (2007).
The role of the S1 domain in Exoribonucleolytic Activity: Substrate Specificity
and Multimerization. RNA 13, 317-327.
[PubMed]
[PDF]
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| (A).- |
Martin-Benito, J., Gomez-Reino, J., Stirling, P.C., Lundin, V.F.,
Gomez-Puertas, P., Boskovic, J., Chacon, P., Fernandez, J.J., Berenguer,
J., Leroux, M.R. & Valpuesta, J.M. (2007). Divergent substrate-binding
mechanisms reveal an evolutionary specialization of eukaryotic prefoldin
compared to its archaeal counterpart. Structure 15, 101-110.
[PubMed]
[PDF]
(cover paper / artículo de portada). |
2006:
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(A).-
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Cordente, A.G., Lopez-Viñas, E., Vazquez, M.I., Gomez-Puertas,
P., Asins, G., Serra, D. & Hegardt, F.G. (2006). Mutagenesis of specific
amino acids converts carnitine acetyltransferase into carnitine palmitoyltransferase.
Biochemistry 45,6133-6141.
[PubMed]
[PDF]
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| (A).- |
Rodriguez-Pombo, P., Navarrete, R., Merinero, B., Gomez-Puertas,
P. & Ugarte, M. (2006). Mutational Spectrum of Maple Syrup Urine Disease
in Spain. Human Mutation 27, 715.
[PubMed]
[PDF]
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(A).-
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Bentebibel, A., Sebastian, D., Herrero, L., Lopez-Viñas,
E., Serra, D., Asins, G., Gomez-Puertas, P. & Hegardt, F.G. (2006).
Novel effect of C75 on Carnitine Palmitoyltransferase I activity and
palmitate oxidation. Biochemistry 45, 4339-4350.
[PubMed]
[PDF]
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(A).-
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Mir, C., Lopez-Viñas, E., Aledo, R., Puisac, B., Rizzo, C.,
Dionisi-Vici, C., Deodato, F., Pie, J., Gomez-Puertas, P., Hegardt, F.G.
& Casals, N. (2006). A single residue mutation, G203E, causes
3-hydroxy-3-methylglutaric aciduria by occluding the substrate channel
in the 3D structural model of HMG-CoA lyase -Review. Journal of Inherited
Metabolic Disease 29, 64-70.
[PubMed]
[PDF]
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(R).-
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Ortiz, A.R., Gomez-Puertas, P., Leo-Macias, A., Lopez-Romero, P.,
Lopez-Viñas, E., Morreale, A., Murcia, M., & Wang, K. (2006)
Computational approaches to model ligand selectivity in drug design. Current
Topics in Medicinal Chemistry 6, 41-55.
[PubMed]
[PDF]
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2005:
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(A).-
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Mendieta, J., Gago, F. & Ramirez, G.
(2005).
Binding of 5'-GMP to the GluR2 AMPA receptor: Insight from targeted molecular dynamics simulation.
Biochemistry.
44:14470-14476.
[PubMed]
[PDF]
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(O).-
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Lopez-Viñas, E. & Gomez-Puertas, P. (2005) -Scientific
divulgation-. Bioinformatica, la informacion al servicio de la ciencia
(Bioinformatics, information in the service of science). Journal of the
Official College of Physicists of Spain: Fisica y Sociedad 16, 46-50.
[PDF] |
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(A).-
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Mendieta, J., Fuertes, M.A., Kunchitapatham, R., Santa-María, I., Moreno, F.J., Alonso, C., Gago, F., Muñoz, V., Avila J. & Hernández, F..
(2005).
Phosphorylation modulates the alpha helical structure and polymerization of a peptide from the third tau microtubule-binding repeat.
Biochim Biophys Acta.
1721:16-26.
[PubMed]
[PDF]
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(R).-
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Perez, B., Desviat, L.R., Gomez-Puertas, P., Martinez, A., Stevens,
R.C. & Ugarte, M. (2005). Kinetic and stability analysis of PKU mutations
identified in BH(4)-responsive patients - Review. Molecular Genetics
and Metabolism 86, S11-S16.
[PubMed]
[PDF]
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(A).-
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Tress, M., de Juan, D., Graña, O., Gomez, M.J., Gomez-Puertas,
P., Gonzalez, J.M., Lopez, G. & Valencia, A. (2005). Scoring docking
models with evolutionary information. PROTEINS: Structure, Function,
and Bioinformatics 60, 275-280.
[PubMed]
[PDF]
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(A).-
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Puisac, B., Lopez-Viñas, E., Moreno, S., Mir, C., Perez-Cerda,
C., Menao, S., Lluch, D., Pie, A., Gomez-Puertas, P., Casals, N., Ugarte,
M., Hegardt, F.G. & Pie, J. (2005). Skipping of exon 2 and exon 2 plus
3 of HMG-CoA lyase (HL) gene produces the loss of beta sheets 1 and 2 in
the recently proposed (beta-alpha)8 TIM barrel model of HL. Biophysical
Chemistry 115, 241-245.
[PubMed]
[PDF]
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2004:
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(C).-
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Lopez-Viñas, E. & Gomez-Puertas, P. (2004). Sequence
and structural alignments of eukaryotic and procaryotic cytoskeletal proteins.
Chapter for "Molecules in time and space: Bacterial shape, division and
phylogeny." M. Vicente, J. Tamames, A. Valencia & J. Mingorance (Eds.)
Kluwer Academic/Plenum Publishers. |
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(A).-
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Mendieta, J. & Gago, F.
(2004).
In silico activation of Src tyrosine kinase reveals the molecular basis for intramolecular autophosphorylation.
J. Mol. Graph. Model.
23:189-198.
[PubMed]
[PDF]
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(A).-
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Mendieta, J., Martin-Santamaria, S., Priego, E.M., Balzarini, J., Camarasa, E M.J., Perez-Perez M.J. & Gago, F.
(2004).
Role of histidine-85 in the catalytic mechanism of thymidine phosphorylase as assessed by targeted molecular dynamics simulations and quantum mechanical calculations.
Biochemistry.
43:405-414.
[PubMed]
[PDF]
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(A).-
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Cordente, A.G., Lopez-Viñas, E., Vazquez, M.I., Swiegers,
J.H., Pretorius, I.S., Gomez-Puertas, P., Hegardt, F.G., Asins, G. &
Serra, D. (2004). Redesign of carnitine acetyltransferase specificity by
protein engineering. Modification of methionine564 broadens the specificity
to longer acyl-CoAs as substrates. Journal of Biological Chemistry
279, 33899-33908.
[PubMed]
[PDF]
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(C).-
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Mingorance, J., Rico, A. & Gomez-Puertas, P. (2004). Bacterial
morphogenes. Chapter for "Molecules in time and space: Bacterial shape,
division and phylogeny." M. Vicente, J. Tamames, A. Valencia & J. Mingorance
(Eds.) Kluwer Academic/Plenum Publishers. |
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(A).-
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Gil, J., García, M.A., Gomez-Puertas, P., Guerra,
S., Rullas, J., Nakano, H., Alcami, A. & Esteban, M. (2004). TRAF family
proteins link PKR with NF-kB activation. Molecular and Cellular Biology
24, 4502-4512.
[PubMed]
[PDF]
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(A).-
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Morillas, M., Lopez-Viñas, E., Valencia, A., Serra, D., Gomez-Puertas,
P., Hegardt, F.G. & Asins, G. (2004). Structural model of carnitine
palmitoyltransferase I based on the carnitine acetyltransferase crystal.
Biochemical Journal 379, 777-784.
[PubMed]
[PDF]
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(R).-
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Gomez-Puertas, P., Martin-Benito, J., Carrascosa, J.L., Willison,
K.R. & Valpuesta, J.M. (2004). The substrate recognition mechanisms
in chaperonins - Review. Journal of Molecular Recognition 17, 85-94.
[PubMed]
[PDF]
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(A).-
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Falcon, A.M., Marion, R.M., Zurcher, T., Gomez-Puertas, P., Portela,
A., Nieto, A. & Ortin, J. (2004). Defective RNA replication and late
gene expression in temperature-sensitive (A/Victoria/3/75) Influenza viruses
expressing deleted forms of NS1 protein. Journal of Virology 78, 3880-3888.
[PubMed]
[PDF]
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(C).-
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Lopez-Romero, P., Gomez, M.J., Gomez-Puertas, P. & Valencia,
A. (2004). Prediction of functional sites in proteins by evolutionary methods.
Chapter for "Principles and Practice. Methods in Proteome and Protein Analysis".
R.M. Kamp, J. Calvete & T. Choli-Papadopoulou (Eds.) Springer-Verlag,
Berlin Heidelberg. |
|
BIOWEB: MOLECULAR MODELLING GROUP
Centro de Biología Molecular "Severo Ochoa" (CSIC-UAM).
http://www.cbm.uam.es/bioweb
|
C/ Nicolás Cabrera, 1. Campus UAM, Cantoblanco.
28049 Madrid. Spain
Tel: (+34) 91 196 4662 / 4663 Fax: (+34) 91 196 4420
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