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PDB: 104 件
4WD4
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BU of 4wd4 by Molmil
Crystal structure of human HO1 H25R
分子名称: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, Heme oxygenase 1, PROTOPORPHYRIN IX CONTAINING FE
著者Caaveiro, J.M.M, Morante, K, Sigala, P, Tsumoto, K.
登録日2014-09-06
公開日2015-09-09
最終更新日2023-11-08
実験手法X-RAY DIFFRACTION (2.95 Å)
主引用文献In-Cell Enzymology To Probe His-Heme Ligation in Heme Oxygenase Catalysis
Biochemistry, 55, 2016
5BTQ
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BU of 5btq by Molmil
Crystal structure of human heme oxygenase 1 H25R with biliverdin bound
分子名称: BILIVERDINE IX ALPHA, Heme oxygenase 1, SULFATE ION
著者Caaveiro, J.M.M, Morante, K, Sigala, P, Tsumoto, K.
登録日2015-06-03
公開日2016-06-08
最終更新日2023-11-08
実験手法X-RAY DIFFRACTION (2.08 Å)
主引用文献In-Cell Enzymology To Probe His-Heme Ligation in Heme Oxygenase Catalysis
Biochemistry, 55, 2016
5BPG
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BU of 5bpg by Molmil
Crystal structure of the water-soluble FraC purified starting from the trans-membrane pore
分子名称: CHLORIDE ION, Fragaceatoxin C, GLYCEROL
著者Caaveiro, J.M.M, Tanaka, K, Tsumoto, K.
登録日2015-05-28
公開日2015-11-18
最終更新日2023-11-08
実験手法X-RAY DIFFRACTION (2.14 Å)
主引用文献Bidirectional Transformation of a Metamorphic Protein between the Water-Soluble and Transmembrane Native States
Biochemistry, 54, 2015
4W4O
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BU of 4w4o by Molmil
High-resolution crystal structure of Fc bound to its human receptor Fc-gamma-RI
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ACETATE ION, GLYCEROL, ...
著者Caaveiro, J.M.M, Kiyoshi, M, Tsumoto, K.
登録日2014-08-15
公開日2015-04-29
最終更新日2023-11-08
実験手法X-RAY DIFFRACTION (1.8 Å)
主引用文献Structural basis for binding of human IgG1 to its high-affinity human receptor Fc gamma RI
Nat Commun, 6, 2015
5X08
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BU of 5x08 by Molmil
Crystal structure of broadly neutralizing anti-HIV-1 antibody 4E10, mutant Npro, with peptide bound
分子名称: ACETATE ION, CHLORIDE ION, Envelope glycoprotein gp160, ...
著者Caaveiro, J.M.M, Rujas, E, Nieva, J.L, Tsumoto, K.
登録日2017-01-20
公開日2017-04-05
最終更新日2023-11-22
実験手法X-RAY DIFFRACTION (1.49 Å)
主引用文献Functional Contacts between MPER and the Anti-HIV-1 Broadly Neutralizing Antibody 4E10 Extend into the Core of the Membrane
J. Mol. Biol., 429, 2017
8JOW
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BU of 8jow by Molmil
Crystal structure of rabbit antibody with phosphorylated peptide bound
分子名称: ARG-PRO-HIS-PHE-PRO-GLN-PHE-SEP-TYR-SER-ALA-SER, Antibody (scFv), CHLORIDE ION
著者Caaveiro, J.M.M, Kawade, R, Tsumoto, K.
登録日2023-06-08
公開日2024-06-12
実験手法X-RAY DIFFRACTION (1.4 Å)
主引用文献Origin of high binding affinity and selectivity of phosphorylated epitope-specific rabbit antibodies
To Be Published
8H63
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BU of 8h63 by Molmil
Crystal structure of Internalin A from Listeria monocytogenes with nanobody VHH10 bound
分子名称: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, GLYCEROL, ISOPROPYL ALCOHOL, ...
著者Caaveiro, J.M.M, Nagatoish, S, Tsumoto, K.
登録日2022-10-15
公開日2023-10-04
最終更新日2023-10-25
実験手法X-RAY DIFFRACTION (1.53 Å)
主引用文献Anti-InlA single-domain antibodies that inhibit the cell invasion of Listeria monocytogenes.
J.Biol.Chem., 299, 2023
8H64
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Crystal structure of Internalin A from Listeria monocytogenes with nanobody VHH24 bound
分子名称: Anti-internalin A VHH24, CHLORIDE ION, Internalin A
著者Caaveiro, J.M.M, Nagatoish, S, Tsumoto, K.
登録日2022-10-15
公開日2023-10-04
最終更新日2023-10-25
実験手法X-RAY DIFFRACTION (2.35 Å)
主引用文献Anti-InlA single-domain antibodies that inhibit the cell invasion of Listeria monocytogenes.
J.Biol.Chem., 299, 2023
8H62
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Crystal structure of Internalin A from Listeria monocytogenes with human E-cadherin EC12
分子名称: ACETATE ION, CALCIUM ION, Cadherin-1, ...
著者Caaveiro, J.M.M, Nagatoish, S, Tsumoto, K.
登録日2022-10-14
公開日2023-10-04
最終更新日2023-10-25
実験手法X-RAY DIFFRACTION (1.91 Å)
主引用文献Anti-InlA single-domain antibodies that inhibit the cell invasion of Listeria monocytogenes.
J.Biol.Chem., 299, 2023
4WDC
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BU of 4wdc by Molmil
High-resolution crystal structure of water-soluble FraC (mutation F16P)
分子名称: Fragaceatoxin C
著者Caaveiro, J.M.M, Morante, K, Tsumoto, K.
登録日2014-09-08
公開日2015-03-18
最終更新日2024-03-20
実験手法X-RAY DIFFRACTION (1.29 Å)
主引用文献A Pore-Forming Toxin Requires a Specific Residue for Its Activity in Membranes with Particular Physicochemical Properties
J.Biol.Chem., 290, 2015
5JYM
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Human P-cadherin EC12 with scFv TSP11 bound
分子名称: Antibody scFv TSP11, CALCIUM ION, Cadherin-3
著者Caaveiro, J.M.M, Kudo, S, Tsumoto, K.
登録日2016-05-14
公開日2016-12-28
最終更新日2023-11-08
実験手法X-RAY DIFFRACTION (2.45 Å)
主引用文献Disruption of cell adhesion by an antibody targeting the cell-adhesive intermediate (X-dimer) of human P-cadherin
Sci Rep, 7, 2017
5JYL
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BU of 5jyl by Molmil
Human P-cadherin MEC1 with scFv TSP7 bound
分子名称: CHLORIDE ION, Cadherin-3, GLYCEROL, ...
著者Caaveiro, J.M.M, Kudo, S, Tsumoto, K.
登録日2016-05-14
公開日2016-12-28
最終更新日2023-11-08
実験手法X-RAY DIFFRACTION (2.55 Å)
主引用文献Disruption of cell adhesion by an antibody targeting the cell-adhesive intermediate (X-dimer) of human P-cadherin
Sci Rep, 7, 2017
4W4N
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BU of 4w4n by Molmil
Crystal structure of human Fc at 1.80 A
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose, GLYCEROL, ...
著者Caaveiro, J.M.M, Kiyoshi, M, Tsumoto, K.
登録日2014-08-15
公開日2015-04-29
最終更新日2023-11-08
実験手法X-RAY DIFFRACTION (1.8 Å)
主引用文献Structural basis for binding of human IgG1 to its high-affinity human receptor Fc gamma RI
Nat Commun, 6, 2015
7EV1
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BU of 7ev1 by Molmil
Crystal structure of LI-Cadherin EC1-2
分子名称: ACETATE ION, CALCIUM ION, Cadherin-17, ...
著者Caaveiro, J.M.M, Yui, A, Tsumoto, K.
登録日2021-05-19
公開日2021-06-16
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (1.38 Å)
主引用文献Mechanism of dimerization and structural features of human LI-cadherin.
J.Biol.Chem., 297, 2021
5GHW
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BU of 5ghw by Molmil
Crystal structure of broad neutralizing antibody 10E8 with long epitope bound
分子名称: Endogenous retrovirus group K member 8 Env polyprotein, FAB 10E8 HEAVY CHAIN, FAB 10E8 LIGHT CHAIN, ...
著者Caaveiro, J.M.M, Rujas, E, Morante, K, Nieva, J.L, Tsumoto, K.
登録日2016-06-21
公開日2016-11-23
最終更新日2023-11-08
実験手法X-RAY DIFFRACTION (2.4 Å)
主引用文献Structural basis for broad neutralization of HIV-1 through the molecular recognition of 10E8 helical epitope at the membrane interface
Sci Rep, 6, 2016
7CUE
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BU of 7cue by Molmil
Crystal structure of HID2 bound to human Hemoglobin
分子名称: Amino acid ABC transporter substrate-binding protein, Hemoglobin subunit alpha, Hemoglobin subunit beta, ...
著者Caaveiro, J.M.M, Hoshino, M, Tsumoto, K.
登録日2020-08-22
公開日2021-07-07
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (2.75 Å)
主引用文献Structural basis for the recognition of human hemoglobin by the Shr protein from Streptococcus pyogenes
To Be Published
7CUD
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BU of 7cud by Molmil
Crystal structure of HID in the unbound form
分子名称: Amino acid ABC transporter substrate-binding protein, BROMIDE ION
著者Caaveiro, J.M.M, Hoshino, M, Tsumoto, K.
登録日2020-08-22
公開日2021-07-07
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (1.8 Å)
主引用文献Structural basis for the recognition of human hemoglobin by the Shr protein from Streptococcus pyogenes
To Be Published
7CYM
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BU of 7cym by Molmil
Crystal structure of LI-Cadherin EC1-4
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, CALCIUM ION, ...
著者Caaveiro, J.M.M, Yui, A, Tsumoto, K.
登録日2020-09-03
公開日2021-08-18
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (2.7 Å)
主引用文献Mechanism of dimerization and structural features of human LI-cadherin.
J.Biol.Chem., 297, 2021
7EKB
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BU of 7ekb by Molmil
Crystal structure of 4E10 modified with pyrene acetamide
分子名称: ACETATE ION, Fab region of the heavy chain of broadly neutralizing antibody anti-HIV-1 4E10, Fab region of the light chain of the broadly neutralizing anti-HIV-1 antibody 4E10, ...
著者Caaveiro, J.M.M, Rujas, E, Nieva, J.L.
登録日2021-04-05
公開日2021-08-11
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (1.45 Å)
主引用文献Focal accumulation of aromaticity at the CDRH3 loop mitigates 4E10 polyreactivity without altering its HIV neutralization profile.
Iscience, 24, 2021
7EKK
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BU of 7ekk by Molmil
Anti-HIV-1 broadly neutralizing antibody delta-loop 4E10 modified with pyrene acetamide
分子名称: AMMONIUM ION, CHLORIDE ION, GLYCEROL, ...
著者Caaveiro, J.M.M, Rujas, E, Nieva, J.L.
登録日2021-04-05
公開日2021-08-11
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (1.7 Å)
主引用文献Focal accumulation of aromaticity at the CDRH3 loop mitigates 4E10 polyreactivity without altering its HIV neutralization profile.
Iscience, 24, 2021
5GWF
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BU of 5gwf by Molmil
FraC with GlcNAc(6S) bound
分子名称: 2-acetamido-2-deoxy-6-O-sulfo-alpha-D-glucopyranose, CHLORIDE ION, DELTA-actitoxin-Afr1a, ...
著者Caaveiro, J.M.M, Tsumoto, K.
登録日2016-09-11
公開日2017-06-21
最終更新日2023-11-08
実験手法X-RAY DIFFRACTION (1.55 Å)
主引用文献Haemolytic actinoporins interact with carbohydrates using their lipid-binding module
Philos. Trans. R. Soc. Lond., B, Biol. Sci., 372, 2017
7WKI
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BU of 7wki by Molmil
Structure of the ultra-affinity complex between CFH and a nanobody
分子名称: Anti-CFH nanobody (VHH), Complement factor H
著者Caaveiro, J.M.M, Yokoo, T, Tsumoto, K.
登録日2022-01-10
公開日2022-11-23
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (2.6 Å)
主引用文献Antibody recognition of complement factor H reveals a flexible loop involved in atypical hemolytic uremic syndrome pathogenesis.
J.Biol.Chem., 298, 2022
7XAR
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BU of 7xar by Molmil
Crystal structure of 3C-like protease from SARS-CoV-2 in complex with covalent inhibitor
分子名称: 3C-like proteinase, 4-fluoranyl-~{N}-[(2~{S})-1-[2-(2-fluoranylethanoyl)-2-[[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]methyl]hydrazinyl]-4-methyl-1-oxidanylidene-pentan-2-yl]-1~{H}-indole-2-carboxamide, CHLORIDE ION, ...
著者Caaveiro, J.M.M, Ochi, J, Takahashi, D, Ueda, T, Ojida, A.
登録日2022-03-18
公開日2022-11-09
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (1.6 Å)
主引用文献Discovery of Chlorofluoroacetamide-Based Covalent Inhibitors for Severe Acute Respiratory Syndrome Coronavirus 2 3CL Protease.
J.Med.Chem., 65, 2022
7XL0
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BU of 7xl0 by Molmil
Crystal structure of Vobarilizumab at 1.70 Angstrom
分子名称: GLYCEROL, Nanobody Vobarilizumab, SULFATE ION
著者Caaveiro, J.M.M, Mori, C, Kinoshita, S, Nakakido, M, Tsumoto, K.
登録日2022-04-20
公開日2022-11-09
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (1.7 Å)
主引用文献Molecular basis for thermal stability and affinity in a VHH: Contribution of the framework region and its influence in the conformation of the CDR3.
Protein Sci., 31, 2022
7XL1
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Crystal structure of chimeric 7D12-Vob nanobody at 1.65 Angstrom
分子名称: Chimeric 7D12-Vob nanobody, MALONATE ION
著者Caaveiro, J.M.M, Kinoshita, S, Mori, C, Nakakido, M, Tsumoto, K.
登録日2022-04-20
公開日2022-11-09
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (1.65 Å)
主引用文献Molecular basis for thermal stability and affinity in a VHH: Contribution of the framework region and its influence in the conformation of the CDR3.
Protein Sci., 31, 2022

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件を2024-08-07に公開中

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