Search Results - "Caaveiro, Jose M."

Affinity improvement of a therapeutic antibody by structure-based computational design: generation of electrostatic interactions in the transition state stabilizes the antibody-antigen complex by Kiyoshi, Masato, Caaveiro, Jose M M, Miura, Eri, Nagatoishi, Satoru, Nakakido, Makoto, Soga, Shinji, Shirai, Hiroki, Kawabata, Shigeki, Tsumoto, Kouhei

“…The optimization of antibodies is a desirable goal towards the development of better therapeutic strategies. The antibody 11K2 was previously developed as a…”
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Selective and reversible modification of kinase cysteines with chlorofluoroacetamides by Shindo, Naoya, Fuchida, Hirokazu, Sato, Mami, Watari, Kosuke, Shibata, Tomohiro, Kuwata, Keiko, Miura, Chizuru, Okamoto, Kei, Hatsuyama, Yuji, Tokunaga, Keisuke, Sakamoto, Seiichi, Morimoto, Satoshi, Abe, Yoshito, Shiroishi, Mitsunori, Caaveiro, Jose M. M., Ueda, Tadashi, Tamura, Tomonori, Matsunaga, Naoya, Nakao, Takaharu, Koyanagi, Satoru, Ohdo, Shigehiro, Yamaguchi, Yasuchika, Hamachi, Itaru, Ono, Mayumi, Ojida, Akio

“…Irreversible inhibition of disease-associated proteins with small molecules is a powerful approach for achieving increased and sustained pharmacological…”
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Structural analysis of Fc/FcγR complexes: a blueprint for antibody design by Caaveiro, Jose M. M., Kiyoshi, Masato, Tsumoto, Kouhei

“…Summary The number of studies and the quality of the structural data of Fcγ receptors (FcγRs) has rapidly increased in the last few years. Upon critical…”
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Structural basis for the recognition of human hemoglobin by the heme-acquisition protein Shr from Streptococcus pyogenes by Senoo, Akinobu, Hoshino, Masato, Shiomi, Toshiki, Nakakido, Makoto, Nagatoishi, Satoru, Kuroda, Daisuke, Nakagawa, Ichiro, Tame, Jeremy R. H., Caaveiro, Jose M. M., Tsumoto, Kouhei

“…In Gram-positive bacteria, sophisticated machineries to acquire the heme group of hemoglobin (Hb) have evolved to extract the precious iron atom contained in…”
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Discovery and Optimization of Inhibitors of the Parkinson’s Disease Associated Protein DJ‑1 by Tashiro, Shinya, Caaveiro, Jose M. M, Nakakido, Makoto, Tanabe, Aki, Nagatoishi, Satoru, Tamura, Yasushi, Matsuda, Noriyuki, Liu, Dali, Hoang, Quyen Q, Tsumoto, Kouhei

“…DJ-1 is a Parkinson’s disease associated protein endowed with enzymatic, redox sensing, regulatory, chaperoning, and neuroprotective activities. Although DJ-1…”
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Bidirectional Transformation of a Metamorphic Protein between the Water-Soluble and Transmembrane Native States by Tanaka, Koji, Caaveiro, Jose M. M, Tsumoto, Kouhei

“…The bidirectional transformation of a protein between its native water-soluble and integral transmembrane conformations is demonstrated for FraC, a hemolytic…”
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Tyrosine Sulfation Restricts the Conformational Ensemble of a Flexible Peptide, Strengthening the Binding Affinity for an Antibody by Miyanabe, Kazuhiro, Yamashita, Takefumi, Abe, Yoshito, Akiba, Hiroki, Takamatsu, Yuichiro, Nakakido, Makoto, Hamakubo, Takao, Ueda, Tadashi, Caaveiro, Jose M. M, Tsumoto, Kouhei

“…Protein tyrosine sulfation (PTS) is a post-translational modification regulating numerous biological events. PTS generally occurs at flexible regions of…”
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Haemolytic actinoporins interact with carbohydrates using their lipid-binding module by Tanaka, Koji, Caaveiro, Jose M. M., Morante, Koldo, Tsumoto, Kouhei

“…Pore-forming toxins (PFTs) are proteins endowed with metamorphic properties that enable them to stably fold in water solutions as well as in cellular…”
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Molecular basis for thermal stability and affinity in a VHH: Contribution of the framework region and its influence in the conformation of the CDR3 by Kinoshita, Seisho, Nakakido, Makoto, Mori, Chinatsu, Kuroda, Daisuke, Caaveiro, Jose M.M., Tsumoto, Kouhei

“…The camelid single domain antibody, referred to VHH or Nanobody, is considered a versatile tool for various biotechnological and clinical applications because…”
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Glycosylation of IgG-Fc: a molecular perspective by Kiyoshi, Masato, Tsumoto, Kouhei, Ishii-Watabe, Akiko, Caaveiro, Jose M M

“…Antibodies of the IgG class carry a pair of oligosaccharides (N-glycans) in the Fc region. The importance of the N-glycan is clearly demonstrated by its…”
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Discovery of Chlorofluoroacetamide-Based Covalent Inhibitors for Severe Acute Respiratory Syndrome Coronavirus 2 3CL Protease by Hirose, Yuya, Shindo, Naoya, Mori, Makiko, Onitsuka, Satsuki, Isogai, Hikaru, Hamada, Rui, Hiramoto, Tadanari, Ochi, Jinta, Takahashi, Daisuke, Ueda, Tadashi, Caaveiro, Jose M. M., Yoshida, Yuya, Ohdo, Shigehiro, Matsunaga, Naoya, Toba, Shinsuke, Sasaki, Michihito, Orba, Yasuko, Sawa, Hirofumi, Sato, Akihiko, Kawanishi, Eiji, Ojida, Akio

“…The coronavirus disease 2019 (COVID-19) pandemic has necessitated the development of antiviral agents against severe acute respiratory syndrome coronavirus 2…”
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Differential Effect of Membrane Composition on the Pore-Forming Ability of Four Different Sea Anemone Actinoporins by García-Linares, Sara, Rivera-de-Torre, Esperanza, Morante, Koldo, Tsumoto, Kouhei, Caaveiro, Jose M. M, Gavilanes, José G, Slotte, J. Peter, Martínez-del-Pozo, Álvaro

“…Sea anemone actinoporins constitute a protein family of multigene pore-forming toxins (PFT). Equinatoxin II (EqtII), fragaceatoxin C (FraC), and sticholysins I…”
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Structural and Thermodynamic Basis of Epitope Binding by Neutralizing and Nonneutralizing Forms of the Anti-HIV-1 Antibody 4E10 by Rujas, Edurne, Gulzar, Naveed, Morante, Koldo, Tsumoto, Kouhei, Scott, Jamie K, Nieva, José L, Caaveiro, Jose M M

“…The 4E10 antibody recognizes the membrane-proximal external region (MPER) of the HIV-1 Env glycoprotein gp41 transmembrane subunit, exhibiting one of the…”
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Ca2+‐induced structural changes and intramolecular interactions in N‐terminal region of diacylglycerol kinase alpha by Takahashi, Daisuke, Yonezawa, Kento, Okizaki, Yuki, Caaveiro, Jose M. M., Ueda, Tadashi, Shimada, Atsushi, Sakane, Fumio, Shimizu, Nobutaka

“…Diacylglycerol kinases (DGKs) are multi‐domain lipid kinases that modulate the levels of lipid messengers, diacylglycerol, and phosphatidic acid. Recently,…”
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Heme Binding Mechanism of Structurally Similar Iron-Regulated Surface Determinant Near Transporter Domains of Staphylococcus aureus Exhibiting Different Affinities for Heme by Moriwaki, Yoshitaka, Terada, Tohru, Caaveiro, Jose M. M, Takaoka, Yousuke, Hamachi, Itaru, Tsumoto, Kouhei, Shimizu, Kentaro

“…Near transporter (NEAT) domains of the iron-regulated surface determinant (Isd) proteins are essential for the import of nutritional heme from host animals to…”
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Computer-guided library generation applied to the optimization of single-domain antibodies by Akiba, Hiroki, Tamura, Hiroko, Caaveiro, Jose M M, Tsumoto, Kouhei

“…Computer-guided library generation is a plausible strategy to optimize antibodies. Herein, we report the improvement of the affinity of a single-domain camelid…”
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Testing Geometrical Discrimination within an Enzyme Active Site: Constrained Hydrogen Bonding in the Ketosteroid Isomerase Oxyanion Hole by Sigala, Paul A, Kraut, Daniel A, Caaveiro, Jose M. M, Pybus, Brandon, Ruben, Eliza A, Ringe, Dagmar, Petsko, Gregory A, Herschlag, Daniel

“…Enzymes are classically proposed to accelerate reactions by binding substrates within active-site environments that are structurally preorganized to optimize…”
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Molecular recognition of a membrane-anchored HIV-1 pan-neutralizing epitope by Torralba, Johana, de la Arada, Igor, Partida-Hanon, Angélica, Rujas, Edurne, Arribas, Madalen, Insausti, Sara, Valotteau, Claire, Valle, Javier, Andreu, David, Caaveiro, José M. M., Jiménez, María Angeles, Apellániz, Beatriz, Redondo-Morata, Lorena, Nieva, José L.

“…Antibodies against the carboxy-terminal section of the membrane-proximal external region (C-MPER) of the HIV-1 envelope glycoprotein (Env) are considered as…”
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Unfolding is the driving force for mitochondrial import and degradation of the Parkinson's disease-related protein DJ-1 by Queliconi, Bruno Barros, Kojima, Waka, Kimura, Mayumi, Imai, Kenichiro, Udagawa, Chisato, Motono, Chie, Hirokawa, Takatsugu, Tashiro, Shinya, Caaveiro, Jose M M, Tsumoto, Kouhei, Yamano, Koji, Tanaka, Keiji, Matsuda, Noriyuki

“…Diverse genes associated with familial Parkinson's disease (familial Parkinsonism) have been implicated in mitochondrial quality control. One such gene, PARK7…”
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Molecular Basis of Recognition of Antibacterial Porphyrins by Heme-Transporter IsdH-NEAT3 of Staphylococcus aureus by Moriwaki, Yoshitaka, Caaveiro, Jose M. M, Tanaka, Yoshikazu, Tsutsumi, Hiroshi, Hamachi, Itaru, Tsumoto, Kouhei

“…Antibiotic resistance is increasingly seen as a serious problem that threatens public health and erodes our capacity to effectively combat disease. So-called…”
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