Author results

5GUW
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COMPLEX OF CYTOCHROME CD1 NITRITE REDUCTASE AND NITRIC OXIDE REDUCTASE IN DENITRIFICATION OF PSEUDOMONAS AERUGINOSA
Descriptor:Nitric oxide reductase subunit C, Nitric oxide reductase subunit B, Nitrite reductase, ...
Authors:Terasaka, E., Sugimoto, H., Shiro, Y., Tosha, T.
Deposit date:2016-08-31
Release date:2017-08-16
Last modified:2017-09-27
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
5GUX
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CYTOCHROME C-DEPENDENT NITRIC OXIDE REDUCTASE (CNOR) FROM PSEUDOMONAS AERUGINOSA IN COMPLEX WITH XENON
Descriptor:Antibody fab fragment light chain, Antibody fab fragment heavy chain, Nitric oxide reductase subunit B, ...
Authors:Ishii, S., Terasaka, E., Sugimoto, H., Shiro, Y., Tosha, T.
Deposit date:2016-08-31
Release date:2017-08-16
Last modified:2017-10-18
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
1JFB
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X-RAY STRUCTURE OF NITRIC OXIDE REDUCTASE (CYTOCHROME P450NOR) IN THE FERRIC RESTING STATE AT ATOMIC RESOLUTION
Descriptor:nitric-oxide reductase cytochrome P450 55A1, PROTOPORPHYRIN IX CONTAINING FE, GLYCEROL
Authors:Shimizu, H., Adachi, S., Park, S.Y., Shiro, Y., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2001-06-20
Release date:2001-12-20
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1 Å)
Cite:X-ray structure of nitric oxide reductase (cytochrome P450nor) at atomic resolution.
Acta Crystallogr.,Sect.D, 58, 2002
1JFC
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X-RAY STRUCTURE OF NITRIC OXIDE REDUCTASE (CYTOCHROME P450NOR) IN THE FERROUS CO STATE AT ATOMIC RESOLUTION
Descriptor:nitric-oxide reductase Cytochrome P450 55A1, PROTOPORPHYRIN IX CONTAINING FE, CARBON MONOXIDE, ...
Authors:Shimizu, H., Adachi, S., Park, S.Y., Shiro, Y., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2001-06-20
Release date:2001-12-20
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.05 Å)
Cite:X-ray structure of nitric oxide reductase (cytochrome P450nor) at atomic resolution.
Acta Crystallogr.,Sect.D, 58, 2002
1EW0
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CRYSTAL STRUCTURE ANALYSIS OF THE SENSOR DOMAIN OF RMFIXL(FERROUS FORM)
Descriptor:FIXL, PROTOPORPHYRIN IX CONTAINING FE
Authors:Miyatake, H., Mukai, M., Park, S.-Y., Adachi, S., Tamura, K., Nakamura, H., Nakamura, K., Tsuchiya, T., Iizuka, T., Shiro, Y.
Deposit date:2000-04-21
Release date:2000-05-10
Last modified:2017-10-04
Method:X-RAY DIFFRACTION (1.4 Å)
Cite:Sensory mechanism of oxygen sensor FixL from Rhizobium meliloti: crystallographic, mutagenesis and resonance Raman spectroscopic studies
J.MOL.BIOL., 301, 2000
3WFC
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REDUCED AND CARBONMONOXIDE-BOUND CYTOCHROME C-DEPENDENT NITRIC OXIDE REDUCTASE (CNOR) FROM PSEUDOMONAS AERUGINOSA IN COMPLEX WITH ANTIBODY FRAGMENT
Descriptor:antibody fab fragment light chain, antibody fab fragment heavy chain, Nitric oxide reductase subunit B, ...
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:2017-11-22
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, 2013
3WFD
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REDUCED AND ACETALDOXIME-BOUND CYTOCHROME C-DEPENDENT NITRIC OXIDE REDUCTASE (CNOR) FROM PSEUDOMONAS AERUGINOSA IN COMPLEX WITH ANTIBODY FRAGMENT
Descriptor:antibody fab fragment light chain, antibody fab fragment heavy chain, Nitric oxide reductase subunit B, ...
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:2017-11-22
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Structures of reduced and ligand-bound nitric oxide reductase provide insights into functional differences in respiratory enzymes
Proteins, 2013
3WFE
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REDUCED AND CYANIDE-BOUND CYTOCHROME C-DEPENDENT NITRIC OXIDE REDUCTASE (CNOR) FROM PSEUDOMONAS AERUGINOSA IN COMPLEX WITH ANTIBODY FRAGMENT
Descriptor:antibody fab fragment light chain, antibody fab fragment heavy chain, Nitric oxide reductase subunit B, ...
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:2017-11-22
Method:X-RAY DIFFRACTION (2.49 Å)
Cite:Structures of reduced and ligand-bound nitric oxide reductase provide insights into functional differences in respiratory enzymes
Proteins, 2013
1WVP
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STRUCTURE OF CHEMICALLY MODIFIED MYOGLOBIN WITH DISTAL N-TETRAZOLYL-HISTIDINE E7(64)
Descriptor:Myoglobin, SULFATE ION, PROTOPORPHYRIN IX CONTAINING FE
Authors:Makino, M., Sugimoto, H., Kamiya, N., Shiro, Y., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2004-12-23
Release date:2005-01-18
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.53 Å)
Cite:Heme environmental structure of a novel artificial myoglobin with a closed heme pocket: site-specific chemical modification producing distal N-tetrazolylhistidine E7 by cyanogen bromide and azide ion
J.Am.Chem.Soc., 113, 1991
2Z3U
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CRYSTAL STRUCTURE OF CHROMOPYRROLIC ACID BOUND CYTOCHROME P450 STAP (CYP245A1)
Descriptor:Cytochrome P450, PROTOPORPHYRIN IX CONTAINING FE, 3,4-DI-1H-INDOL-3-YL-1H-PYRROLE-2,5-DICARBOXYLIC ACID, ...
Authors:Makino, M., Sugimoto, H., Shiro, Y., Asamizu, S., Onaka, H., Nagano, S.
Deposit date:2007-06-06
Release date:2007-07-03
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Crystal structures and catalytic mechanism of cytochrome P450 StaP that produces the indolocarbazole skeleton
Proc.Natl.Acad.Sci.Usa, 104, 2007
4YN8
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CRYSTAL STRUCTURE OF RESPONSE REGULATOR CHRA IN HEME-SENSING TWO COMPONENT SYSTEM
Descriptor:Response regulator ChrA, SULFATE ION, MAGNESIUM ION
Authors:Doi, A., Nakamura, H., Shiro, Y., Sugimoto, H.
Deposit date:2015-03-09
Release date:2015-08-19
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Structure of the response regulator ChrA in the haem-sensing two-component system of Corynebacterium diphtheriae.
Acta Crystallogr.,Sect.F, 71, 2015
1GEI
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STRUCTURAL CHARACTERIZATION OF N-BUTYL-ISOCYANIDE COMPLEXES OF CYTOCHROMES P450NOR AND P450CAM
Descriptor:CYTOCHROME P450 55A1, PROTOPORPHYRIN IX CONTAINING FE, N-BUTYL ISOCYANIDE
Authors:Lee, D.-S., Park, S.-Y., Yamane, K., Shiro, Y.
Deposit date:2000-11-13
Release date:2000-11-29
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Structural characterization of n-butyl-isocyanide complexes of cytochromes P450nor and P450cam.
Biochemistry, 40, 2001
1GEJ
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STRUCTURAL CHARACTERIZATION OF N-BUTYL-ISOCYANIDE COMPLEXES OF CYTOCHROMES P450NOR AND P450CAM
Descriptor:CYTOCHROME P450 55A1, PROTOPORPHYRIN IX CONTAINING FE, N-BUTYL ISOCYANIDE
Authors:lee, D.-S., Park, S.-Y., Yamane, K., Shiro, Y.
Deposit date:2000-11-13
Release date:2000-12-06
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.5 Å)
Cite:Structural characterization of n-butyl-isocyanide complexes of cytochromes P450nor and P450cam.
Biochemistry, 40, 2001
1IZO
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CYTOCHROME P450 BS BETA COMPLEXED WITH FATTY ACID
Descriptor:Cytochrome P450 152A1, PROTOPORPHYRIN IX CONTAINING FE, PALMITOLEIC ACID
Authors:Lee, D.S., Yamada, A., Sugimoto, H., Matsunaga, I., Ogura, H., Ichihara, K., Adachi, S., Park, S.Y., Shiro, Y., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2002-10-10
Release date:2003-03-18
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Substrate Recognition and Molecular Mechanism of Fatty Acid Hydroxylation by Cytochrome P450 from Bacillus subtilis. CRYSTALLOGRAPHIC, SPECTROSCOPIC, AND MUTATIONAL STUDIES.
J.Biol.Chem., 278, 2003
1V5H
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CRYSTAL STRUCTURE OF HUMAN CYTOGLOBIN (FERRIC FORM)
Descriptor:Cytoglobin, PROTOPORPHYRIN IX CONTAINING FE
Authors:Sugimoto, H., Makino, M., Sawai, H., Kawada, N., Yoshizato, K., Shiro, Y., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2003-11-23
Release date:2004-06-08
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Structural basis of human cytoglobin for ligand binding.
J.Mol.Biol., 339, 2004
3A0R
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CRYSTAL STRUCTURE OF HISTIDINE KINASE THKA (TM1359) IN COMPLEX WITH RESPONSE REGULATOR PROTEIN TRRA (TM1360)
Descriptor:Sensor protein, Response regulator, MERCURY (II) ION
Authors:Yamada, S., Sugimoto, H., Kobayashi, M., Ohno, A., Nakamura, H., Shiro, Y.
Deposit date:2009-03-24
Release date:2009-10-20
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (3.8 Å)
Cite:Structure of PAS-linked histidine kinase and the response regulator complex
Structure, 17, 2009
3CV8
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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:2011-07-13
Method:X-RAY DIFFRACTION (2 Å)
Cite:Structure-based design of a highly active vitamin D hydroxylase from Streptomyces griseolus CYP105A1
Biochemistry, 47, 2008
3CV9
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CRYSTAL STRUCTURE OF VITAMIN D HYDROXYLASE CYTOCHROME P450 105A1 (R73A/R84A MUTANT) IN COMPLEX WITH 1ALPHA,25-DIHYDROXYVITAMIN D3
Descriptor:Cytochrome P450-SU1, PROTOPORPHYRIN IX CONTAINING FE, 5-{2-[1-(5-HYDROXY-1,5-DIMETHYL-HEXYL)-7A-METHYL-OCTAHYDRO-INDEN-4-YLIDENE]-ETHYLIDENE}-4-METHYLENE-CYCLOHEXANE-1,3-DIOL
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:2011-07-13
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
4U72
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CRYSTAL STRUCTURE OF 4-PHENYLIMIDAZOLE BOUND FORM OF HUMAN INDOLEAMINE 2,3-DIOXYGENASE (A260G MUTANT)
Descriptor:Indoleamine 2,3-dioxygenase 1, PROTOPORPHYRIN IX CONTAINING FE, 4-PHENYL-1H-IMIDAZOLE, ...
Authors:Sugimoto, H., Horitani, M., Kometani, E., Shiro, Y.
Deposit date:2014-07-30
Release date:2015-09-02
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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CRYSTAL STRUCTURE OF 4-PHENYLIMIDAZOLE BOUND FORM OF HUMAN INDOLEAMINE 2,3-DIOXYGENASE (G262A MUTANT)
Descriptor:Indoleamine 2,3-dioxygenase 1, PROTOPORPHYRIN IX CONTAINING FE, 4-PHENYL-1H-IMIDAZOLE, ...
Authors:Sugimoto, H., Horitani, M., Kometani, E., Shiro, Y.
Deposit date:2014-07-30
Release date:2015-09-02
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
5XHL
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CRYSTAL STRUCTURE OF HASAP WITH GALLIUM PHTHALOCYANINE
Descriptor:Heme acquisition protein HasAp, Phthalocyanine containing GA
Authors:Shoji, O., Shisaka, Y., Iwai, Y., Sugimoto, H., Shiro, Y., Watanabe, Y.
Deposit date:2017-04-21
Release date:2017-12-06
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Crystal Structure of HasAp with Gallium Phthalocyanine
to be published
5Y5I
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TIME-RESOLVED SFX STRUCTURE OF CYTOCHROME P450NOR: 20 MS AFTER PHOTO-IRRADIATION OF CAGED NO IN THE PRESENCE OF NADH (NO-BOUND STATE), LIGHT DATA
Descriptor:NADP nitrous oxide-forming nitric oxide reductase, PROTOPORPHYRIN IX CONTAINING FE, NITRIC OXIDE, ...
Authors:Tosha, T., Nomura, T., Nishida, T., Saeki, N., Okubayashi, K., Yamagiwa, R., Sugahara, M., Nakane, T., Yamashita, K., Hirata, K., Ueno, G., Kimura, T., Hisano, T., Muramoto, K., Sawai, H., Takeda, H., Mizohata, E., Yamashita, A., Kanematsu, Y., Takano, Y., Nango, E., Tanaka, R., Nureki, O., Ikemoto, Y., Murakami, H., Owada, S., Tono, K., Yabashi, M., Yamamoto, M., Ago, H., Iwata, S., Sugimoto, H., Shiro, Y., Kubo, M.
Deposit date:2017-08-09
Release date:2017-12-06
Last modified:2018-09-19
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Capturing an initial intermediate during the P450nor enzymatic reaction using time-resolved XFEL crystallography and caged-substrate.
Nat Commun, 8, 2017
5Y5J
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TIME-RESOLVED SFX STRUCTURE OF CYTOCHROME P450NOR: DARK-2 DATA IN THE PRESENCE OF NADH (RESTING STATE)
Descriptor:NADP nitrous oxide-forming nitric oxide reductase, PROTOPORPHYRIN IX CONTAINING FE, GLYCEROL
Authors:Tosha, T., Nomura, T., Nishida, T., Saeki, N., Okubayashi, K., Yamagiwa, R., Sugahara, M., Nakane, T., Yamashita, K., Hirata, K., Ueno, G., Kimura, T., Hisano, T., Muramoto, K., Sawai, H., Takeda, H., Mizohata, E., Yamashita, A., Kanematsu, Y., Takano, Y., Nango, E., Tanaka, R., Nureki, O., Ikemoto, Y., Murakami, H., Owada, S., Tono, K., Yabashi, M., Yamamoto, M., Ago, H., Iwata, S., Sugimoto, H., Shiro, Y., Kubo, M.
Deposit date:2017-08-09
Release date:2017-12-06
Method:X-RAY DIFFRACTION (2 Å)
Cite:Capturing an initial intermediate during the P450nor enzymatic reaction using time-resolved XFEL crystallography and caged-substrate.
Nat Commun, 8, 2017
5Y5K
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TIME-RESOLVED SFX STRUCTURE OF CYTOCHROME P450NOR : 20 MS AFTER PHOTO-IRRADIATION OF CAGED NO IN THE ABSENCE OF NADH (NO-BOUND STATE), LIGHT DATA
Descriptor:NADP nitrous oxide-forming nitric oxide reductase, PROTOPORPHYRIN IX CONTAINING FE, NITRIC OXIDE
Authors:Tosha, T., Nomura, T., Nishida, T., Saeki, N., Okubayashi, K., Yamagiwa, R., Sugahara, M., Nakane, T., Yamashita, K., Hirata, K., Ueno, G., Kimura, T., Hisano, T., Muramoto, K., Sawai, H., Takeda, H., Mizohata, E., Yamashita, A., Kanematsu, Y., Takano, Y., Nango, E., Tanaka, R., Nureki, O., Ikemoto, Y., Murakami, H., Owada, S., Tono, K., Yabashi, M., Yamamoto, M., Ago, H., Iwata, S., Sugimoto, H., Shiro, Y., Kubo, M.
Deposit date:2017-08-09
Release date:2017-12-06
Last modified:2018-09-19
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Capturing an initial intermediate during the P450nor enzymatic reaction using time-resolved XFEL crystallography and caged-substrate.
Nat Commun, 8, 2017
5Y5L
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TIME-RESOLVED SFX STRUCTURE OF CYTOCHROME P450NOR: DARK-2 DATA IN THE ABSENCE OF NADH (RESTING STATE)
Descriptor:NADP nitrous oxide-forming nitric oxide reductase, PROTOPORPHYRIN IX CONTAINING FE
Authors:Tosha, T., Nomura, T., Nishida, T., Saeki, N., Okubayashi, K., Yamagiwa, R., Sugahara, M., Nakane, T., Yamashita, K., Hirata, K., Ueno, G., Kimura, T., Hisano, T., Muramoto, K., Sawai, H., Takeda, H., Mizohata, E., Yamashita, A., Kanematsu, Y., Takano, Y., Nango, E., Tanaka, R., Nureki, O., Ikemoto, Y., Murakami, H., Owada, S., Tono, K., Yabashi, M., Yamamoto, M., Ago, H., Iwata, S., Sugimoto, H., Shiro, Y., Kubo, M.
Deposit date:2017-08-09
Release date:2017-12-06
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Capturing an initial intermediate during the P450nor enzymatic reaction using time-resolved XFEL crystallography and caged-substrate.
Nat Commun, 8, 2017