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7F36
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BU of 7f36 by Molmil
TacT complexed with acetyl-glycyl-tRNAGly
Descriptor: ACETYLAMINO-ACETIC ACID, CALCIUM ION, N-acetyltransferase domain-containing protein, ...
Authors:Yashiro, Y, Tomita, K.
Deposit date:2021-06-15
Release date:2021-12-22
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (3.098 Å)
Cite:Molecular basis of glycyl-tRNAGly acetylation by TacT from Salmonella Typhimurium
Cell Rep, 37, 2021
7F37
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BU of 7f37 by Molmil
Crystal structure of AtaT2-AtaR2 complex
Descriptor: DUF1778 domain-containing protein, GNAT family N-acetyltransferase
Authors:Yashiro, Y, Tomita, K.
Deposit date:2021-06-15
Release date:2021-12-22
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.896 Å)
Cite:Molecular basis of glycyl-tRNAGly acetylation by TacT from Salmonella Typhimurium
Cell Rep, 37, 2021
7CHD
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BU of 7chd by Molmil
AtaT complexed with acetyl-methionyl-tRNAfMet
Descriptor: N-acetyltransferase domain-containing protein, RNA (77-MER)
Authors:Yashiro, Y, Tomita, K.
Deposit date:2020-07-05
Release date:2020-11-04
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (3.804 Å)
Cite:Mechanism of aminoacyl-tRNA acetylation by an aminoacyl-tRNA acetyltransferase AtaT from enterohemorrhagic E. coli.
Nat Commun, 11, 2020
8J6V
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BU of 8j6v by Molmil
Structure of yeast Arginyl-tRNA-protein transferase 1
Descriptor: arginyltransferase
Authors:Yashiro, Y, Tomita, K.
Deposit date:2023-04-26
Release date:2023-06-07
Last modified:2024-05-29
Method:X-RAY DIFFRACTION (3.4 Å)
Cite:Structure of Arginyl-tRNA-protein transferase 1
To Be Published
6AJN
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BU of 6ajn by Molmil
Crystal structure of AtaTR bound with AcCoA
Descriptor: ACETYL COENZYME *A, DUF1778 domain-containing protein, N-acetyltransferase
Authors:Yashiro, Y, Yamashita, S, Tomita, K.
Deposit date:2018-08-28
Release date:2019-01-02
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (3.302 Å)
Cite:Crystal Structure of the Enterohemorrhagic Escherichia coli AtaT-AtaR Toxin-Antitoxin Complex.
Structure, 27, 2019
6AJM
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BU of 6ajm by Molmil
Crystal structure of apo AtaTR
Descriptor: DUF1778 domain-containing protein, N-acetyltransferase, TRIETHYLENE GLYCOL
Authors:Yashiro, Y, Yamashita, S, Tomita, K.
Deposit date:2018-08-28
Release date:2019-01-02
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.604 Å)
Cite:Crystal Structure of the Enterohemorrhagic Escherichia coli AtaT-AtaR Toxin-Antitoxin Complex.
Structure, 27, 2019
3CV9
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BU of 3cv9 by Molmil
Crystal structure of vitamin D hydroxylase cytochrome P450 105A1 (R73A/R84A mutant) in complex with 1alpha,25-dihydroxyvitamin D3
Descriptor: 5-{2-[1-(5-HYDROXY-1,5-DIMETHYL-HEXYL)-7A-METHYL-OCTAHYDRO-INDEN-4-YLIDENE]-ETHYLIDENE}-4-METHYLENE-CYCLOHEXANE-1,3-DIOL, Cytochrome P450-SU1, PROTOPORPHYRIN IX CONTAINING FE
Authors:Hayashi, K, Sugimoto, H, Shinkyo, R, Yamada, M, Ikeda, S, Ikushiro, S, Kamakura, M, Shiro, Y, Sakaki, T.
Deposit date:2008-04-18
Release date:2008-11-04
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Structure-based design of a highly active vitamin D hydroxylase from Streptomyces griseolus CYP105A1
Biochemistry, 47, 2008
3CV8
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BU of 3cv8 by Molmil
Crystal structure of vitamin D hydroxylase cytochrome P450 105A1 (R84F mutant)
Descriptor: Cytochrome P450-SU1, PROTOPORPHYRIN IX CONTAINING FE
Authors:Hayashi, K, Sugimoto, H, Shinkyo, R, Yamada, M, Ikeda, S, Ikushiro, S, Kamakura, M, Shiro, Y, Sakaki, T.
Deposit date:2008-04-18
Release date:2008-11-04
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2 Å)
Cite:Structure-based design of a highly active vitamin D hydroxylase from Streptomyces griseolus CYP105A1
Biochemistry, 47, 2008
5GUX
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BU of 5gux by Molmil
Cytochrome c-dependent nitric oxide reductase (cNOR) from Pseudomonas aeruginosa in complex with xenon
Descriptor: Antibody fab fragment heavy chain, Antibody fab fragment light chain, CALCIUM ION, ...
Authors:Ishii, S, Terasaka, E, Sugimoto, H, Shiro, Y, Tosha, T.
Deposit date:2016-08-31
Release date:2017-08-16
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (3.3 Å)
Cite:Dynamics of nitric oxide controlled by protein complex in bacterial system.
Proc. Natl. Acad. Sci. U.S.A., 114, 2017
5GUW
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BU of 5guw by Molmil
Complex of Cytochrome cd1 Nitrite Reductase and Nitric Oxide Reductase in Denitrification of Pseudomonas aeruginosa
Descriptor: CALCIUM ION, CHLORIDE ION, FE (III) ION, ...
Authors:Terasaka, E, Sugimoto, H, Shiro, Y, Tosha, T.
Deposit date:2016-08-31
Release date:2017-08-16
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (3.2 Å)
Cite:Dynamics of nitric oxide controlled by protein complex in bacterial system
Proc. Natl. Acad. Sci. U.S.A., 114, 2017
6FWF
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BU of 6fwf by Molmil
Low resolution structure of Neisseria meningitidis qNOR
Descriptor: CALCIUM ION, FE (III) ION, Nitric-oxide reductase, ...
Authors:Young, D, Antonyuk, S, Tosha, T, Hisano, T, Hasnain, S, Shiro, Y.
Deposit date:2018-03-06
Release date:2018-03-14
Last modified:2024-01-17
Method:X-RAY DIFFRACTION (4.2 Å)
Cite:Characterization of the quinol-dependent nitric oxide reductase from the pathogen Neisseria meningitidis, an electrogenic enzyme.
Sci Rep, 8, 2018
4U72
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BU of 4u72 by Molmil
Crystal structure of 4-phenylimidazole bound form of human indoleamine 2,3-dioxygenase (A260G mutant)
Descriptor: 2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID, 4-PHENYL-1H-IMIDAZOLE, Indoleamine 2,3-dioxygenase 1, ...
Authors:Sugimoto, H, Horitani, M, Kometani, E, Shiro, Y.
Deposit date:2014-07-30
Release date:2015-09-02
Last modified:2020-01-29
Method:X-RAY DIFFRACTION (2 Å)
Cite:Conformation and Mobility of Active Site Loop is Critical for Substrate Binding and Inhibition in Human Indoleamine 2,3-Dioxygenase
to be published
4U74
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BU of 4u74 by Molmil
Crystal structure of 4-phenylimidazole bound form of human indoleamine 2,3-dioxygenase (G262A mutant)
Descriptor: 2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID, 4-PHENYL-1H-IMIDAZOLE, Indoleamine 2,3-dioxygenase 1, ...
Authors:Sugimoto, H, Horitani, M, Kometani, E, Shiro, Y.
Deposit date:2014-07-30
Release date:2015-09-02
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.31 Å)
Cite:Conformation and Mobility of Active Site Loop is Critical for Substrate Binding and Inhibition in Human Indoleamine 2,3-Dioxygenase
to be published
3O0R
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BU of 3o0r by Molmil
Crystal structure of nitric oxide reductase from Pseudomonas aeruginosa in complex with antibody fragment
Descriptor: CALCIUM ION, FE (III) ION, HEME C, ...
Authors:Hino, T, Matsumoto, Y, Nagano, S, Sugimoto, H, Fukumori, Y, Murata, T, Iwata, S, Shiro, Y.
Deposit date:2010-07-20
Release date:2010-12-29
Last modified:2013-10-16
Method:X-RAY DIFFRACTION (2.7 Å)
Cite:Structural basis of biological N2O generation by bacterial nitric oxide reductase
Science, 330, 2010
6QQ6
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BU of 6qq6 by Molmil
Cryo-EM structure of dimeric quinol dependent nitric oxide reductase (qNOR) Val495Ala mutant from Alcaligenes xylosoxidans
Descriptor: (1R)-2-{[(R)-(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(DODECANOYLOXY)METHYL]ETHYL (9Z)-OCTADEC-9-ENOATE, CALCIUM ION, DODECYL-BETA-D-MALTOSIDE, ...
Authors:Gopalasingam, C.C, Johnson, R.M, Chiduza, G.N, Tosha, T, Yamamoto, M, Shiro, Y, Antonyuk, S.V, Muench, S.P, Hasnain, S.S.
Deposit date:2019-02-17
Release date:2019-09-11
Last modified:2024-05-15
Method:ELECTRON MICROSCOPY (3.3 Å)
Cite:Dimeric structures of quinol-dependent nitric oxide reductases (qNORs) revealed by cryo-electron microscopy.
Sci Adv, 5, 2019
6QQ5
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BU of 6qq5 by Molmil
Cryo-EM structure of dimeric quinol dependent nitric oxide reductase (qNOR) from Alcaligenes xylosoxidans
Descriptor: CALCIUM ION, FE (III) ION, Nitric oxide reductase subunit B, ...
Authors:Gopalasingam, C.C, Johnson, R.M, Chiduza, G.N, Tosha, T, Yamamoto, M, Shiro, Y, Antonyuk, S.V, Muench, S.P, Hasnain, S.S.
Deposit date:2019-02-17
Release date:2019-09-11
Last modified:2024-05-15
Method:ELECTRON MICROSCOPY (3.9 Å)
Cite:Dimeric structures of quinol-dependent nitric oxide reductases (qNORs) revealed by cryo-electron microscopy.
Sci Adv, 5, 2019
5XA4
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BU of 5xa4 by Molmil
Crystal Structure of HasAp with Fe-5,15-Diazaporphyrin
Descriptor: 10,20-Diphenyl-5,15-diaza-porphyrin containing FE, Heme acquisition protein HasAp
Authors:Shoji, O, Uehara, H, Sugimoto, H, Shiro, Y, Watanabe, Y.
Deposit date:2017-03-10
Release date:2017-12-06
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.3 Å)
Cite:Structures of the Heme Acquisition Protein HasA with Iron(III)-5,15-Diphenylporphyrin and Derivatives Thereof as an Artificial Prosthetic Group
Angew. Chem. Int. Ed. Engl., 56, 2017
5XIC
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BU of 5xic by Molmil
Crystal Structure of HasAp with Fe-5,10,15-triphenylporphyrin
Descriptor: 3,6,9,12,15,18,21-HEPTAOXATRICOSANE-1,23-DIOL, 5,10,15-Triphenylporphyrin cpntaining FE, Heme acquisition protein HasAp
Authors:Shoji, O, Uehara, H, Sugimoto, H, Shiro, Y, Watanabe, Y.
Deposit date:2017-04-26
Release date:2017-12-06
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.45 Å)
Cite:Structures of the Heme Acquisition Protein HasA with Iron(III)-5,15-Diphenylporphyrin and Derivatives Thereof as an Artificial Prosthetic Group
Angew. Chem. Int. Ed. Engl., 56, 2017
5XKB
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BU of 5xkb by Molmil
Crystal Structure of HasAp with Fe-5,15-bisethynyl-10,20-diphenylporphyrin
Descriptor: 5,15-Bisethynyl-10,20-diphenylporphyrin containing FE, Heme acquisition protein HasAp
Authors:Shoji, O, Uehara, H, Sugimoto, H, Shiro, Y, Watanabe, Y.
Deposit date:2017-05-06
Release date:2017-12-06
Last modified:2024-03-27
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Structures of the Heme Acquisition Protein HasA with Iron(III)-5,15-Diphenylporphyrin and Derivatives Thereof as an Artificial Prosthetic Group
Angew. Chem. Int. Ed. Engl., 56, 2017
5XIB
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BU of 5xib by Molmil
Crystal Structure of HasAp with Fe-5,15-Diphenylporphyrin
Descriptor: 5,15-Diphenylporphyrin containing FE, Heme acquisition protein HasAp
Authors:Shoji, O, Uehara, H, Sugimoto, H, Shiro, Y, Watanabe, Y.
Deposit date:2017-04-26
Release date:2017-12-06
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Structures of the Heme Acquisition Protein HasA with Iron(III)-5,15-Diphenylporphyrin and Derivatives Thereof as an Artificial Prosthetic Group
Angew. Chem. Int. Ed. Engl., 56, 2017
5X7E
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BU of 5x7e by Molmil
Crystal structure of vitamin D hydroxylase cytochrome P450 105A1 (R84A mutant) in complex with 1,25-dihydroxyvitamin D2
Descriptor: (1R,3S,5Z)-5-[(2E)-2-[(1R,3aS,7aR)-1-[(E,2R,5S)-5,6-dimethyl-6-oxidanyl-hept-3-en-2-yl]-7a-methyl-2,3,3a,5,6,7-hexahydr o-1H-inden-4-ylidene]ethylidene]-4-methylidene-cyclohexane-1,3-diol, PROTOPORPHYRIN IX CONTAINING FE, Vitamin D3 dihydroxylase
Authors:Hayashi, K, Yasuda, K, Shiro, Y, Sugimoto, H, Sakaki, T.
Deposit date:2017-02-25
Release date:2017-05-10
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Production of an active form of vitamin D2 by genetically engineered CYP105A1
Biochem. Biophys. Res. Commun., 486, 2017
5CPG
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BU of 5cpg by Molmil
R-Hydratase PhaJ1 from Pseudomonas aeruginosa in the unliganded form
Descriptor: (R)-specific enoyl-CoA hydratase, GLYCEROL
Authors:Tsuge, T, Sato, S, Hiroe, A, Ishizuka, K, Kanazawa, H, Kanagarajan, S, Shiro, Y, Hisano, T.
Deposit date:2015-07-21
Release date:2015-10-07
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.694 Å)
Cite:Contribution of the Distal Pocket Residue to the Acyl-Chain-Length Specificity of (R)-Specific Enoyl-Coenzyme A Hydratases from Pseudomonas spp.
Appl.Environ.Microbiol., 81, 2015
5XA3
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BU of 5xa3 by Molmil
Crystal Structure of P450BM3 with Benzyloxycarbonyl-L-prolyl-L-phenylalanine
Descriptor: Bifunctional cytochrome P450/NADPH-P450 reductase, DIMETHYL SULFOXIDE, PHENYLALANINE, ...
Authors:Shoji, O, Yanagisawa, S, Stanfield, J.K, Suzuki, K, Kasai, C, Cong, Z, Sugimoto, H, Shiro, Y, Watanabe, Y.
Deposit date:2017-03-10
Release date:2018-02-21
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Direct Hydroxylation of Benzene to Phenol by Cytochrome P450BM3 Triggered by Amino Acid Derivatives.
Angew. Chem. Int. Ed. Engl., 56, 2017
5XSO
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BU of 5xso by Molmil
Crystal structure of full-length FixJ from B. japonicum crystallized in space group C2221
Descriptor: FORMIC ACID, GLYCEROL, Response regulator FixJ
Authors:Nishizono, Y, Hisano, T, Sawai, H, Shiro, Y, Nakamura, H, Wright, G.S.A, Saeki, A, Hikima, T, Yamamoto, M, Antonyuk, S.V, Hasnain, S.S.
Deposit date:2017-06-14
Release date:2018-05-23
Last modified:2024-03-27
Method:X-RAY DIFFRACTION (1.778 Å)
Cite:Architecture of the complete oxygen-sensing FixL-FixJ two-component signal transduction system.
Sci Signal, 11, 2018
3WFC
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BU of 3wfc by Molmil
Reduced and carbonmonoxide-bound cytochrome c-dependent nitric oxide reductase (cNOR) from Pseudomonas aeruginosa in complex with antibody fragment
Descriptor: CALCIUM ION, CARBON MONOXIDE, FE (III) ION, ...
Authors:Sato, N, Ishii, S, Hino, T, Sugimoto, H, Fukumori, Y, Shiro, Y, Tosha, T.
Deposit date:2013-07-18
Release date:2014-05-28
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Structures of reduced and ligand-bound nitric oxide reductase provide insights into functional differences in respiratory enzymes.
Proteins, 82, 2014

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