8SSC
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8SSD
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8SSE
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![BU of 8sse by Molmil](/molmil-images/mine/8sse) | Methionine synthase, C-terminal fragment, Cobalamin and Reactivation Domains from Thermus thermophilus HB8 | Descriptor: | COBALAMIN, Methionine synthase | Authors: | Yamada, K, Mendoza, J, Koutmos, M. | Deposit date: | 2023-05-08 | Release date: | 2023-10-11 | Last modified: | 2024-05-01 | Method: | X-RAY DIFFRACTION (3.15 Å) | Cite: | Structure of full-length cobalamin-dependent methionine synthase and cofactor loading captured in crystallo. Nat Commun, 14, 2023
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1HQC
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![BU of 1hqc by Molmil](/molmil-images/mine/1hqc) | STRUCTURE OF RUVB FROM THERMUS THERMOPHILUS HB8 | Descriptor: | ADENINE, MAGNESIUM ION, RUVB | Authors: | Yamada, K, Kunishima, N, Mayanagi, K, Iwasaki, H, Morikawa, K. | Deposit date: | 2000-12-15 | Release date: | 2001-02-21 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (3.2 Å) | Cite: | Crystal structure of the Holliday junction migration motor protein RuvB from Thermus thermophilus HB8. Proc.Natl.Acad.Sci.USA, 98, 2001
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7TH4
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8UY2
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![BU of 8uy2 by Molmil](/molmil-images/mine/8uy2) | Methylenetetrahydrofolate reductase from Chaetomium thermophilum DSM 1495, AdoMet-bound, Inhibited (T) State | Descriptor: | ACETATE ION, FLAVIN-ADENINE DINUCLEOTIDE, GLYCEROL, ... | Authors: | Yamada, K, Mendoza, J, Koutmos, M. | Deposit date: | 2023-11-12 | Release date: | 2024-06-19 | Last modified: | 2024-07-03 | Method: | X-RAY DIFFRACTION (2.83 Å) | Cite: | Structural basis of S-adenosylmethionine-dependent allosteric transition from active to inactive states in methylenetetrahydrofolate reductase. Nat Commun, 15, 2024
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7TH5
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![BU of 7th5 by Molmil](/molmil-images/mine/7th5) | Thermus thermophilus methylenetetrahydrofolate reductase | Descriptor: | FLAVIN-ADENINE DINUCLEOTIDE, Methylenetetrahydrofolate reductase, SODIUM ION | Authors: | Yamada, K, Koutmos, M. | Deposit date: | 2022-01-10 | Release date: | 2023-01-18 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (2.09 Å) | Cite: | 5-Formyltetrahydrofolate promotes conformational remodeling in a methylenetetrahydrofolate reductase active site and inhibits its activity. J.Biol.Chem., 299, 2022
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5CUZ
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![BU of 5cuz by Molmil](/molmil-images/mine/5cuz) | Crystal structure of SeMet-substituted N-terminal truncated human B12-chaperone CblD (108-296) | Descriptor: | Methylmalonic aciduria and homocystinuria type D protein, mitochondrial | Authors: | Yamada, K, Gherasim, C, Banerjee, R, Koutmos, M. | Deposit date: | 2015-07-25 | Release date: | 2015-09-23 | Last modified: | 2015-12-16 | Method: | X-RAY DIFFRACTION (2.31 Å) | Cite: | Structure of Human B12 Trafficking Protein CblD Reveals Molecular Mimicry and Identifies a New Subfamily of Nitro-FMN Reductases. J.Biol.Chem., 290, 2015
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8UY1
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5GUA
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![BU of 5gua by Molmil](/molmil-images/mine/5gua) | Structure of biotin carboxyl carrier protein from pyrococcus horikoshi OT3 (delta N79) A138Y mutant | Descriptor: | 149aa long hypothetical methylmalonyl-CoA decarboxylase gamma chain | Authors: | Yamada, K, Kunishima, N, Matsuura, Y, Nakai, K, Naitow, H, Fukasawa, Y, Tomii, K. | Deposit date: | 2016-08-26 | Release date: | 2017-08-30 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.5 Å) | Cite: | Designing better diffracting crystals of biotin carboxyl carrier protein from Pyrococcus horikoshii by a mutation based on the crystal-packing propensity of amino acids. Acta Crystallogr D Struct Biol, 73, 2017
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5GU9
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![BU of 5gu9 by Molmil](/molmil-images/mine/5gu9) | Structure of biotin carboxyl carrier protein from pyrococcus horikoshi OT3 (delta N79) A138I mutant | Descriptor: | 149aa long hypothetical methylmalonyl-CoA decarboxylase gamma chain | Authors: | Yamada, K, Kunishima, N, Matsuura, Y, Nakai, K, Naitow, H, Fukasawa, Y, Tomii, K. | Deposit date: | 2016-08-26 | Release date: | 2017-08-30 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.9 Å) | Cite: | Designing better diffracting crystals of biotin carboxyl carrier protein from Pyrococcus horikoshii by a mutation based on the crystal-packing propensity of amino acids. Acta Crystallogr D Struct Biol, 73, 2017
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5CV0
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![BU of 5cv0 by Molmil](/molmil-images/mine/5cv0) | Crystal structure of N-terminal truncated human B12-chaperone CblD (108-296) | Descriptor: | Methylmalonic aciduria and homocystinuria type D protein, mitochondrial | Authors: | Yamada, K, Gherasim, C, Banerjee, R, Koutmos, M. | Deposit date: | 2015-07-24 | Release date: | 2015-09-23 | Last modified: | 2023-09-27 | Method: | X-RAY DIFFRACTION (1.9 Å) | Cite: | Structure of Human B12 Trafficking Protein CblD Reveals Molecular Mimicry and Identifies a New Subfamily of Nitro-FMN Reductases. J.Biol.Chem., 290, 2015
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5GU8
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![BU of 5gu8 by Molmil](/molmil-images/mine/5gu8) | Structure of biotin carboxyl carrier protein from pyrococcus horikoshi OT3 (delta N79) wild type | Descriptor: | 149aa long hypothetical methylmalonyl-CoA decarboxylase gamma chain, SODIUM ION | Authors: | Yamada, K, Kunishima, N, Matsuura, Y, Nakai, K, Naitow, H, Fukasawa, Y, Tomii, K. | Deposit date: | 2016-08-26 | Release date: | 2017-08-30 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Designing better diffracting crystals of biotin carboxyl carrier protein from Pyrococcus horikoshii by a mutation based on the crystal-packing propensity of amino acids. Acta Crystallogr D Struct Biol, 73, 2017
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5VON
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![BU of 5von by Molmil](/molmil-images/mine/5von) | Methionine synthase folate-binding domain from Thermus thermophilus HB8 | Descriptor: | 5-methyltetrahydrofolate homocysteine S-methyltransferase, GLYCEROL | Authors: | Yamada, K, Koutmos, M. | Deposit date: | 2017-05-03 | Release date: | 2018-01-17 | Last modified: | 2023-10-04 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | The folate-binding module of Thermus thermophilus cobalamin-dependent methionine synthase displays a distinct variation of the classical TIM barrel: a TIM barrel with a `twist'. Acta Crystallogr D Struct Biol, 74, 2018
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1UHR
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![BU of 1uhr by Molmil](/molmil-images/mine/1uhr) | Solution structure of the SWIB domain of mouse BRG1-associated factor 60a | Descriptor: | SWI/SNF related, matrix associated, actin dependent regulator of chromatin subfamily D member 1 | Authors: | Yamada, K, Saito, K, Nameki, N, Inoue, M, Koshiba, S, Shirouzu, M, Terada, T, Yabuki, T, Aoki, M, Matsuda, T, Seki, E, Hirota, H, Yoshida, M, Tanaka, A, Osanai, T, Arakawa, T, Carninci, P, Kawai, J, Hayashizaki, Y, Kigawa, T, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2003-07-09 | Release date: | 2004-08-24 | Last modified: | 2023-12-27 | Method: | SOLUTION NMR | Cite: | Solution structure of the SWIB domain of mouse BRG1-associated factor 60a To be Published
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1V6B
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![BU of 1v6b by Molmil](/molmil-images/mine/1v6b) | Solution structure of the third PDZ domain of mouse harmonin | Descriptor: | harmonin isoform a1 | Authors: | Yamada, K, Nameki, N, Saito, K, Koshiba, S, Inoue, M, Kigawa, T, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2003-11-28 | Release date: | 2004-05-28 | Last modified: | 2023-12-27 | Method: | SOLUTION NMR | Cite: | Solution structure of the third PDZ domain of mouse harmonin To be Published
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8EAC
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![BU of 8eac by Molmil](/molmil-images/mine/8eac) | Thermus thermophilus methylenetetrahydrofolate reductase | Descriptor: | FLAVIN-ADENINE DINUCLEOTIDE, Methylenetetrahydrofolate reductase | Authors: | Yamada, K, Koutmos, M. | Deposit date: | 2022-08-28 | Release date: | 2023-01-18 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (1.9 Å) | Cite: | 5-Formyltetrahydrofolate promotes conformational remodeling in a methylenetetrahydrofolate reductase active site and inhibits its activity. J.Biol.Chem., 299, 2022
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1WCZ
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![BU of 1wcz by Molmil](/molmil-images/mine/1wcz) | Crystal structure of an alkaline form of v8 protease from Staphylococcus aureus | Descriptor: | Glutamyl endopeptidase, ZINC ION | Authors: | Yamada, K, Ohta, M, Hasegawa, T, Torii, K, Murakami, M, Kouyama, K. | Deposit date: | 2004-05-10 | Release date: | 2004-06-01 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Crystal structure of an alkaline form of v8 protease from Staphylococcus aureus To be Published
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1IXS
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![BU of 1ixs by Molmil](/molmil-images/mine/1ixs) | Structure of RuvB complexed with RuvA domain III | Descriptor: | Holliday junction DNA helicase ruvA, PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER, RuvB | Authors: | Yamada, K, Miyata, T, Tsuchiya, D, Oyama, T, Fujiwara, Y, Ohnishi, T, Iwasaki, H, Shinagawa, H, Ariyoshi, M, Mayanagi, K, Morikawa, K. | Deposit date: | 2002-07-04 | Release date: | 2002-11-06 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (3.2 Å) | Cite: | Crystal Structure of the RuvA-RuvB Complex: A Structural Basis for the Holliday Junction Migrating Motor Machinery Mol.Cell, 10, 2002
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1IXR
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![BU of 1ixr by Molmil](/molmil-images/mine/1ixr) | RuvA-RuvB complex | Descriptor: | Holliday junction DNA helicase ruvA, PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER, RuvB | Authors: | Yamada, K, Miyata, T, Tsuchiya, D, Oyama, T, Fujiwara, Y, Ohnishi, T, Iwasaki, H, Shinagawa, H, Ariyoshi, M, Mayanagi, K, Morikawa, K. | Deposit date: | 2002-07-04 | Release date: | 2002-11-06 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (3.3 Å) | Cite: | Crystal Structure of the RuvA-RuvB Complex: A Structural Basis for the Holliday Junction Migrating Motor Machinery Mol.Cell, 10, 2002
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3APY
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2Y9Y
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![BU of 2y9y by Molmil](/molmil-images/mine/2y9y) | Chromatin Remodeling Factor ISW1a(del_ATPase) | Descriptor: | IMITATION SWITCH PROTEIN 1 (DEL_ATPASE), ISWI ONE COMPLEX PROTEIN 3 | Authors: | Yamada, K, Frouws, T.D, Angst, B, Fitzgerald, D.J, DeLuca, C, Schimmele, K, Sargent, D.F, Richmond, T.J. | Deposit date: | 2011-02-17 | Release date: | 2011-04-20 | Last modified: | 2024-05-08 | Method: | X-RAY DIFFRACTION (3.25 Å) | Cite: | Structure and Mechanism of the Chromatin Remodelling Factor Isw1A. Nature, 472, 2011
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3APT
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2Y9Z
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![BU of 2y9z by Molmil](/molmil-images/mine/2y9z) | Chromatin Remodeling Factor ISW1a(del_ATPase) in DNA complex | Descriptor: | I-DNA/E-DNA, IMITATION SWITCH PROTEIN 1 (DEL_ATPASE), ISWI ONE COMPLEX PROTEIN 3 | Authors: | Yamada, K, Frouws, T.D, Angst, B, Fitzgerald, D.J, DeLuca, C, Schimmele, K, Sargent, D.F, Richmond, T.J. | Deposit date: | 2011-02-17 | Release date: | 2011-04-20 | Last modified: | 2024-05-08 | Method: | X-RAY DIFFRACTION (3.601 Å) | Cite: | Structure and Mechanism of the Chromatin Remodelling Factor Isw1A Nature, 472, 2011
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1MFN
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![BU of 1mfn by Molmil](/molmil-images/mine/1mfn) | SOLUTION NMR STRUCTURE OF LINKED CELL ATTACHMENT MODULES OF MOUSE FIBRONECTIN CONTAINING THE RGD AND SYNERGY REGIONS, 20 STRUCTURES | Descriptor: | FIBRONECTIN | Authors: | Copie, V, Tomita, Y, Akiyama, S.K, Aota, S, Yamada, K.M, Venable, R.M, Pastor, R.W, Krueger, S, Torchia, D.A. | Deposit date: | 1998-01-27 | Release date: | 1998-04-29 | Last modified: | 2024-05-22 | Method: | SOLUTION NMR | Cite: | Solution structure and dynamics of linked cell attachment modules of mouse fibronectin containing the RGD and synergy regions: comparison with the human fibronectin crystal structure. J.Mol.Biol., 277, 1998
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