2003

Rigden, D. J., Jedrzejas, M. J., Galperin, M. Y. Amidase domains from bacterial and phage autolysins define a family of gamma-glutamate-specific amidohydrolases. Trends in Biochemical Sciences. , v.aceito, 2003.

Rigden, D. J., Galperin, M. Y., Jedrzejas, M. J. Analysis of structure and function of putative surface-exposed proteins encoded in the Streptococcus pneumoniae genome: A bioinformatics-based approach to vaccine and drug design. Critical Reviews in Biochemistry and Molecular Biology. , v.aceito, 2003.

Rigden, D. J., Jedrzejas, M. J., Galperin, M. Y. Excalibur: an extracellular calcium-binding domain in bacteria with a distant relationship to the EF hands. Fems Microbiological Letters. , v.aceito, 2003.

Rigden, D. J., Jedrzejas, M. J. Genome-based identification of a carbohydrate binding module in Streptococcus pneumoniae hyaluronate lyase. Proteins: Structure, Function and Genetics. , v.aceito, 2003.

Rigden, D. J., Lamani, E., Mello, L. V., Littlejohn, J. E., Jedrzejas, M. J. Insights into the catalytic mechanism of cofactor-independent phosphoglycerate mutase from X-ray crystallography, simulated dynamics and molecular modelling.. J. Mol. Biol.. , v.aceito, 2003.

Oliveira-Neto, O. B., Batista, J. A. N., Rigden, D. J., Franco, O. C., Falcao, R., Fragoso, R. R., Mello, L. V., Grossidesa, M. F. Molecular cloning of alpha-amylases from cotton boll weevil, Anthonomus grandis and structural relations to plant inhibitors: an approach to insect resistance. Journal of Protein Chemistry. , v.press, 2003.

Hannaert V., Saavedra, E., Duffieux, F., Szikora, J.-P., Rigden, D. J., Michels, P. A. M., Opperdoes, F. R. Plant-like traits associated with metabolism of trypanosomatid parasites. Proceedings of the National Academy of Sciences USA. , v.100, p.1067 - 1071, 2003.

Rigden, D. J., Littlejohn, J. E., Henderson, K., Jedrzejas, M. J. Structures of phosphate and trivanadate complexes of Bacillus stearothermophilus phosphatase PhoE: Structural and functional analysis in the cofactor-dependent phosphoglycerate mutase superfamily. Journal of Molecular Biology. , v.325, p.411 - 420, 2003.

Rigden, D. J., Hwa, L. W., Marangoni, S., Toyama, M. H., Polikarpov, I. The structure of the D49 phospholipase A2 piratoxin III from Bothrops pirajai reveals unprecedented structural displacement of the calcium-binding loop: possible relationship to cooperative substrate binding.. Acta Crystallographica D. , v.D59, p.255 - 262, 2003.

Rigden, D. J. Unexpected catalytic site variation in phosphoprotein phosphatase homologues of cofactor-dependent phosphoglycerate mutase.. Febs Lett. , v.536, p.77 - 84, 2003.

2002

Mello LV, De Groot BL, Li S, Jedrzejas MJ. (2002) Structure and flexibility of Streptococcus agalactiae hyaluronate lyase complex with its substrate. Insights into the mechanism of processive degradation of hyaluronan. J Biol Chem. 277(39):36678-88.

Mello LV, Millner PA, Findlay JB. (2002) Biochemical characteristics of guanine nucleotide binding protein alpha-subunit recombinant protein and three mutants: investigation of a domain motion involved in GDP-GTP exchange. J Protein Chem. 21(1):29-34.

Jedrzejas MJ, Mello LV, de Groot BL, Li S. (2002) Mechanism of hyaluronan degradation by Streptococcus pneumoniae hyaluronate lyase. Structures of complexes with the substrate. J Biol Chem. 277(31):28287-97.

Rigden, D. J., Mello, L. V. Anotação functional computacional de proteínas.. Biotecnologia. , v.4, p.64 - 70, 2002.

Rigden, D. J., Franco, O. L. Beta-helical catalytic domains in Glycoside Hydrolase families 49, 55 and 87: Domain architecture, modelling and assignment of catalytic residues.. Febs Lett. , v.530, p.225 - 232, 2002. Mazitsos, C. F., Rigden, D. J., Tsoungas, P. G., Clonis, Y. D. Galactosyl-biomimetic dye-ligands for the purification of Dactylium dendroides galactose oxidase.. Journal of Chromatography - A. , v.954, p.137 - 150, 2002.

Mazitsos, C. F., Rigden, D. J., Tsoungas, P. G., Clonis, Y. D. Galactosyl-mimodye ligands for Pseudomonas fluorescens beta-galactose dehydrogenase: design, synthesis and evaluation. European Journal of Biochemistry. , v.press, 2002.

Rigden, D. J. Iterative database searches demonstrate that Glycoside Hydrolase families 27, 31, 36 and 66 share a common evolutionary origin with family 13.. Febs Lett. , v.523, p.17 - 22, 2002.

Lopez, C., Chevalier, N., Hannaert V., Rigden, D. J., Michels, P. A. M., Ramirez, J. L. Leishmania donovani phosphofructokinase: gene characterisation, biochemical properties and structure-modelling. European Journal Of Biochemistry. , v.269, p.3978 - 3989, 2002.

Franco, O. C., Grossidesa, M. F., Sales, M. P., Mello, L. V., Oliveira, A. S., Rigden, D. J. Overlapping binding sites for trypsin and papain on a Kunitz-type proteinase inhibitor from Prosopsis juliflora.. Proteins. , v.48, p.311 - 319, 2002.

Campos, M. A., Ribeiro, S. G., Rigden, D. J., Monte, D. C., Grossidesa, M. F. Pathogenesis related-like genes within Solanum nigrum genome: isolation of genes coding for neutral and basic PR5-like proteins.. Physiological And Molecular Plant Pathology. , v.61, p.205 - 216, 2002.

Franco, O. L., Rigden, D. J., Melo, F. R., Grossidesa, M. F. Plant alpha-amylase inhibitors and their interaction with insect alpha-amylases.. European Journal of Biochemistry. , v.269, n.2, p.397 - 412, 2002.

Rigden, D. J., Setlow, P., Setlow, B., Bagyan, I., Stein, R. A., Jedrzejas, M. J. PrfA protein of Bacillus species: Prediction and demonstration of endonuclease activity on DNA. Protein Science. , v.11, p.2370 - 2381, 2002.

Rigden, D. J., Mosolov, V. V., Galperin, M. Y. Sequence conservation in the chagasin family suggests a common trend in cysteine proteinase binding by unrelated protein inhibitors.. Protein Sci. . , v.11, p.1971 - 1977, 2002.

Rigden, D. J., Mello, L. V., Setlow, P., Jedrzejas, M. J. Structure and mechanism of action of a cofactor-dependent phosphoglycerate mutase homolog from Bacillus stearothermophilus with broad specificity phosphatase activity.. Journal of Molecular Biology. , v.315, n.5, p.1129 - 1143, 2002.

Hannaert V., Yernaux, C., Rigden, D. J., Fothergillgilmore, L. A., Opperdoes, F. R., Michels, P. A. M. The putative effector-binding site of Leishmania mexicana pyruvate kinase studied by site-directed mutagenesis. Febs Lett. , v.514, p.255 - 259, 2002.

Rigden, D. J. Use of covariance analysis for the prediction of structural domain boundaries from multiple protein sequence alignments.. Protein Engineering. , v.15, n.2, p.65 - 77, 2002.

2001

Labrou, N.E., Mello,L.V. and Clonis, Y.A. (2001) The conserved Asn49 of maize glutathione S-transferase I modulates substrate binding, catalysis and intersubunit communication. European Journal of Biochemistry, 268 (14): 3950-3957.

Labrou, N.E., Mello,L.V. and Clonis, Y.A. (2001) Functional and Structural role of the glutathione- binding residues in maize (Zea mays) glutathione-S-transferase-I. Biochemical Journal, 358: 101-110.

Rigden, D. J., Bagyan, I., Lamani, E., Setlow, P., Jedrzejas, M. J. A cofactor-dependent phosphoglycerate mutase homolog from Bacillus species is actually a broad specificity phosphatase.. Protein Science. , v.10, n.9, p.1835 - 1846, 2001.

Batista, C. V. F., Scaloni, A., Rigden, D. J., Silva, L. R., Romero, A. R., Ferrara, L., Dukor, R., Bloch Jr, C. A novel heterodimeric antibacterial peptide from the Brazilian frog Phyllomedusa distincta.. Febs Lett. , v.494, n.1-2, p.85 - 89, 2001.

Labrou, N. E., Rigden, D. J., Clonis, Y. D. Active site characterization of Candida boidinii formate dehydrogenase.. Biochemical Journal. , v.354, n.2, p.455 - 463, 2001.

Labrou, N. E., Rigden, D. J., Clonis, Y. D. New family of glutathionyl-biomimetic ligands for affinity chromatography of glutathione-recognising enzymes.. Journal of Chromatography - A. , v.917, n.1-2, p.29 - 42, 2001.

Rigden, D. J., Monteiro Ac, Grossidesa, M. F. The protease inhibitor chagasin of Trypanosoma cruzi adopts an immunoglobulin-type fold and may have arisen by horizontal gene transfer.. Febs Lett. , v.50, n.1-2, p.41 - 44, 2001.

Togawa R.C., Antoniw J.F. and , Mullins J.G.L. TMCompare : transmembrane region sequence and structure. Bioinformatics. 17:1238-1239.2001

2000

Franco, O. L., Rigden, D. J., Melo, F. R., Bloch Jr, C., Silva, C. P., Grossidesa, M. F. Activity of wheat a-amylase inhibitors towards bruchid a-amylases and structural explanation of observed specificities.. Eur. J. Biochem.. , v.267, 2000.

Nairn, J., Duncan, D., Price, N. E., Kelly, S. M., Fothergillgilmore, L. A., Uhrinova, S., Barlow, P. N., Rigden, D. J., Price, N. C. Characterisation of active-site mutants of Schizosaccharomyces pombe phosphoglycerate mutase: elucidation of the roles of amino acids involved in substrate binding and catalysis. . European Journal Of Biochemistry. , v.267, n.24, p.7065 - 7074, 2000.

Labrou, N. E., Rigden, D. J., Clonis, Y. D. Characterisation of the NAD+ binding site of Candida boidinii formate dehydrogenase by affinity labelling and site-directed mutagenesis.. European Journal Of Biochemistry. , v.267, n.22, p.6657 - 6664, 2000.

Caldas, S. A., Coelho, V. P. C., Rigden, D. J., Neschich, G., Moro, A. M., Brigido, M. M. Design and synthesis of germline-based hemi-humanized single chain Fvs against the CD18 surface antigen. . Protein Engineering. , v.13, n.5, p.353 - 360, 2000.

Kralova, I., Rigden, D. J., Opperdoes, F. R., Michels, P. A. M. Glycerol kinase of Trypanosoma brucei: cloning, molecular characterization and mutagenesis. . Eur. J. Biochem.. , v.267, p.2323 - 2333, 2000.

Fothergillgilmore, L. A., Rigden, D. J., Michels, P. A. M., Phillips, S. E. V. Leishmania pyruvate kinase: the crystal structure reveals the structural basis of its unique regulatory properties.. Biochemical Society Transactions. , v.28, p.186 - 190, 2000.

Iulek, J., Franco, O. L., Silva, M., Slivinski, C. T., Bloch Jr, C., Rigden, D. J., Grossidesa, M. F. Purification, biochemical characterization and partial primary structure of a new a-amylase inhibitor from Secale cereale (Rye). . International Journal of Biochemistry and Cellular Biology. , v.32, p.1195 - 1204, 2000.

Rigden, D. J., Mello, L. V., Bertioli, D. J. Structural modelling of a plant disease resistance gene product domain. . Proteins: Structure, Function and Genetics. , v.41, n.1, p.133 - 143, 2000.

Chevalier, N., Rigden, D. J., Roy, J. V., Opperdoes, F. R., Michels, P. A. M. Trypanosoma brucei contains a 2,3-bisphosphoglycerate independent phosphoglycerate mutase. . Eur. J. Biochem.. , v.267, p.1464 - 1472, 2000.

Da Silva M.C.M., Grossi de Sá M.F., Chrispeels M.J., Togawa R.C. and G. Neshich. Analysis of Structural and Physico-chemical Parameters Involved in the Specificity of Binding between Alpha-Amylases and their Inhibitors. Protein Engineering, 3:167-177.2000.

1999

Rigden, D. J., Carneiro, M. A structural model for the rolA protein and its interaction with DNA.. Proteins: Structure, Function and Genetics. , v.37, p.697 - 708, 1999.

Hadjigeorgiou, G. M., Kawashima, N., Bruno, C., Andreu, A. L., Sue, C. M., Rigden, D. J., Kawashima, A., Shanske, S., Dimauro, S. Manifesting hereozygotes in a Japanese family with a novel mutation in the muscle-specific phosphoglycerate mutase (PGAM-M) gene. . Neuromuscular Disorders. , v.9, p.399 - 402, 1999.

Rigden, D. J., Walter, R. A., Phillips, S. E. V., Fothergillgilmore, L. A. Polyanionic inhibitors of phosphoglycerate mutase: Combined structural and biochemical analysis.. Journal of Molecular Biology. , v.289, p.691 - 700, 1999.

Lambrou, N. E., Mello, L. V., Rigden, D. J., Keen, J. N., Findlay, J. B. C. Structure-activity studies on cysteine-substituted neurokinin A analogues. . Peptides. , v.20, p.795 - 801, 1999.

Rigden, D. J., Walter, R. A., Phillips, S. E. V., Fothergillgilmore, L. A. Sulphate ions observed in the 2.12Å structure of a new crystal form of S. cerevisiae phosphoglycerate mutase provide insights into understanding the catalytic mechanism.. Journal of Molecular Biology. , v.286, p.1507 - 1517, 1999.

Walter, R. A., Nairn, J., Duncan, D., Price, N. C., Kelly, S. M., Rigden, D. J., Fothergillgilmore, L. A. The role of the C-terminal region in phosphoglycerate mutase. . Biochemical Journal. , v.337, p.89 - 95, 1999.

Rigden, D. J., Phillips, S. E. V., Michels, P. A. M., Fothergillgilmore, L. A. The structure of pyruvate kinase from Leishmania mexicana reveals details of the allosteric transition and unusual effector specificity.. Journal of Molecular Biology. , v.291, p.615 - 635, 1999.

1998

Mello, L.V., van Aalten, D.M.F. and Findlay, J.B.C. (1998) Dynamic properties of the G-protein alpha subunit and comparison of its GTPase domain with ras-p21. Biochemistry, 37:3137-3142.

Rigden, D. J., Alexeev, D., Phillips, S. E. V., Fothergillgilmore, L. A. The 2.3 Å X-ray crystal structure of S. cerevisiae phosphoglycerate mutase.. Journal of Molecular Biology. , v.276, p.449 - 459, 1998.

Cavalcante T.B. ,Rezende A. ,Togawa R.C. , Rodrigues P., Magalhaes L. and Neshich G. A new field tested data gathering, recording, transfer and dissemination via the World Wide Web. - Taxon , 47:381-386. 1998.

Neshich G., Togawa R.C., Prilusky J. , Suussman J. and Honig B. Searching for the Right PDB File with the 3DB Browser and Displaying Structure and Sequence Data with STING - PDB Quarterly NewsLetter, July 1998, page 7 - electronic edition.

Neshich G., Togawa R.C., Villela W. and Honig B. Sequence To and withIN Graphics PDB Viewer (STING-PDB viewer) - PDB Quarterly NewsLetter, July 1998, page 6 - electronic edition.

1997

Freitas, S.M., Mello, L.V. ,Silva, M.C.M., Vriend, G., Neshich, G. and Ventura, M.M. (1997) Analysis of the Black-eyed Pea Trypsin and Chymotrypsin Inhibitor-alpha-chymotrypsin complex." FEBS Letters, 409: 121-127.

Mello, L.V., van Aalten, D.M.F. and Findlay, J.B.C. (1997) Comparison of ras-p21 bound to GDP and GTP: differences in protein and ligand dynamics. Protein Engineering, 10(4): 381-387.

Michels, P. A. M., Chevalier, N., Opperdoes, F. R., Rider, M. H., Rigden, D. J. The glycosomal ATP-dependent phosphofructokinase of Trypanosoma Brucei must have evolved from an ancestral pyrophosphate-dependent enzyme. . Eur. J. Biochem.. , v.250, p.698 - 704, 1997.

1996

Carvalho, P.G.B., Bloch Jr. C., Morhy, L., Silva, M.C.M., Mello, L.V. and Neshich, G. (1996) Amino Acid Sequence of the Phaseolus vulgaris Var. "Fogo na serra" Inhibitor and Interactive Surface Modeling for the enzyme-Inhibitor Complex. Journal of Protein Chemistry, 15(6): 593-600.

Nairn, J., Price, N. C., Kelly, S. M., Rigden, D. J., Fothergillgilmore, L. A., Krell, T. Phosphoglycerate mutase from Schizosaccharomyces pombe : development of an expression system and characterisation of three histidine mutants of the enzyme. . Biochimica and Biophysica Acta. , v.1296, p.69 - 75, 1996.

1995

Mello, L.V., Silva, W.J., Medina-Filho, H.P. and Balvve, R. (1995) Breeding system in Coix lacryma-jobi populations. Euphytica, 81: 217-221.

Bezerra, I.C., Castro, L.B., Neshich, G., Dealmeida, E.R.P., Mello, L.V. and Monte-Neshich, D. (1995) A corn-specific gene encodes tarin, a major globulin of taro (Colocasia esculenta L. Schott). Plant Molecular Biology, 28: 137-144.

Nairn, J., Allison, P. J., Smith, S., Rigden, D. J., Fothergillgilmore, L. A., Price, N. C. Cloning and sequencing of a gene encoding pyruvate kinase from Schizosaccharomyces pombe; implications for quaternary structure and regulation of the enzyme.. Fems Microbiological Letters. , v.134, p.221 - 226, 1995.

1994

1993

Paes, N.S., Ferreira, P., Sousa, C.R.B., Gerhardt, I.R., Mello, L.V., Sousa, M.V. and Grossi de Sá,M.F. (1993) Purification and analysis of arcelin-5 protein. Annual Report of CIAT: 313-320.

1990

Rigden, D. J., Jellyman, A. E., Frayn, K. N., Coppack, S. W. Human adipose tussue glycogen levels and their response to carbohydrate feeding. European Journal of Clinical Nutrition. , v.44, p.689 - 692, 1990.