Author results

11AS
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ASPARAGINE SYNTHETASE MUTANT C51A, C315A COMPLEXED WITH L-ASPARAGINE
Descriptor:ASPARAGINE SYNTHETASE, ASPARAGINE
Authors:Nakatsu, T., Kato, H., Oda, J.
Deposit date:1997-12-02
Release date:1998-12-30
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Crystal structure of asparagine synthetase reveals a close evolutionary relationship to class II aminoacyl-tRNA synthetase.
Nat.Struct.Biol., 5, 1998
12AS
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ASPARAGINE SYNTHETASE MUTANT C51A, C315A COMPLEXED WITH L-ASPARAGINE AND AMP
Descriptor:ASPARAGINE SYNTHETASE, ASPARAGINE, ADENOSINE MONOPHOSPHATE
Authors:Nakatsu, T., Kato, H., Oda, J.
Deposit date:1997-12-02
Release date:1998-12-30
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Crystal structure of asparagine synthetase reveals a close evolutionary relationship to class II aminoacyl-tRNA synthetase.
Nat.Struct.Biol., 5, 1998
2D1Q
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CRYSTAL STRUCTURE OF THE THERMOSTABLE JAPANESE FIREFLY LUCIFERASE COMPLEXED WITH MGATP
Descriptor:Luciferin 4-monooxygenase, ADENOSINE MONOPHOSPHATE
Authors:Nakatsu, T., Ichiyama, S., Hiratake, J., Saldanha, A., Kobashi, N., Sakata, K., Kato, H., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2005-08-31
Release date:2006-03-21
Last modified:2018-01-31
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Structural basis for the spectral difference in luciferase bioluminescence.
Nature, 440, 2006
2D1R
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CRYSTAL STRUCTURE OF THE THERMOSTABLE JAPANESE FIREFLY LUCIFERASE COMPLEXED WITH OXYLUCIFERIN AND AMP
Descriptor:Luciferin 4-monooxygenase, ADENOSINE MONOPHOSPHATE, 2-(6-HYDROXY-1,3-BENZOTHIAZOL-2-YL)-1,3-THIAZOL-4(5H)-ONE
Authors:Nakatsu, T., Ichiyama, S., Hiratake, J., Saldanha, A., Kobashi, N., Sakata, K., Kato, H., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2005-08-31
Release date:2006-03-21
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Structural basis for the spectral difference in luciferase bioluminescence.
Nature, 440, 2006
2D1S
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CRYSTAL STRUCTURE OF THE THERMOSTABLE JAPANESE FIREFLY LUCIFERASE COMPLEXED WITH HIGH-ENERGY INTERMEDIATE ANALOGUE
Descriptor:Luciferin 4-monooxygenase, CHLORIDE ION, 5'-O-[N-(DEHYDROLUCIFERYL)-SULFAMOYL] ADENOSINE
Authors:Nakatsu, T., Ichiyama, S., Hiratake, J., Saldanha, A., Kobashi, N., Sakata, K., Kato, H., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2005-08-31
Release date:2006-03-21
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.3 Å)
Cite:Structural basis for the spectral difference in luciferase bioluminescence.
Nature, 440, 2006
2D1T
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CRYSTAL STRUCTURE OF THE THERMOSTABLE JAPANESE FIREFLY LUCIFERASE RED-COLOR EMISSION S286N MUTANT COMPLEXED WITH HIGH-ENERGY INTERMEDIATE ANALOGUE
Descriptor:Luciferin 4-monooxygenase, CHLORIDE ION, 5'-O-[N-(DEHYDROLUCIFERYL)-SULFAMOYL] ADENOSINE
Authors:Nakatsu, T., Ichiyama, S., Hiratake, J., Saldanha, A., Kobashi, N., Sakata, K., Kato, H., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2005-08-31
Release date:2006-03-21
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.45 Å)
Cite:Structural basis for the spectral difference in luciferase bioluminescence.
Nature, 440, 2006
1IPE
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TROPINONE REDUCTASE-II COMPLEXED WITH NADPH
Descriptor:TROPINONE REDUCTASE-II, NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
Authors:Yamashita, A., Endo, M., Higashi, T., Nakatsu, T., Yamada, Y., Oda, J., Kato, H., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2001-05-09
Release date:2003-06-03
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Capturing Enzyme Structure Prior to Reaction Initiation: Tropinone Reductase-II-Substrate Complexes
BIOCHEMISTRY, 42, 2003
1IPF
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TROPINONE REDUCTASE-II COMPLEXED WITH NADPH AND TROPINONE
Descriptor:TROPINONE REDUCTASE-II, NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE, 8-METHYL-8-AZABICYCLO[3,2,1]OCTAN-3-ONE
Authors:Yamashita, A., Endo, M., Higashi, T., Nakatsu, T., Yamada, Y., Oda, J., Kato, H., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2001-05-09
Release date:2003-06-03
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Capturing Enzyme Structure Prior to Reaction Initiation: Tropinone Reductase-II-Substrate Complexes
BIOCHEMISTRY, 42, 2003
1K5C
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ENDOPOLYGALACTURONASE I FROM STEREUM PURPUREUM AT 0.96 A RESOLUTION
Descriptor:ENDOPOLYGALACTURONASE, N-ACETYL-D-GLUCOSAMINE, CHLORIDE ION, ...
Authors:Shimizu, T., Nakatsu, T., Miyairi, K., Okuno, T., Kato, H.
Deposit date:2001-10-10
Release date:2002-06-05
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (0.96 Å)
Cite:Active-site architecture of endopolygalacturonase I from Stereum purpureum revealed by crystal structures in native and ligand-bound forms at atomic resolution.
Biochemistry, 41, 2002
1KCC
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ENDOPOLYGALACTURONASE I FROM STEREUM PURPUREUM COMPLEXED WITH A GALACTURONATE AT 1.00 A RESOLUTION.
Descriptor:ENDOPOLYGALACTURONASE, Beta-D-Galactopyranuronic acid, N-ACETYL-D-GLUCOSAMINE, ...
Authors:Shimizu, T., Nakatsu, T., Miyairi, K., Okuno, T., Kato, H.
Deposit date:2001-11-08
Release date:2002-06-05
Last modified:2015-10-14
Method:X-RAY DIFFRACTION (1 Å)
Cite:Active-site architecture of endopolygalacturonase I from Stereum purpureum revealed by crystal structures in native and ligand-bound forms at atomic resolution.
Biochemistry, 41, 2002
1KCD
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ENDOPOLYGALACTURONASE I FROM STEREUM PURPUREUM COMPLEXED WITH TWO GALACTURONATE AT 1.15 A RESOLUTION.
Descriptor:ENDOPOLYGALACTURONASE, beta-D-galactofuranuronic acid, Beta-D-Galactopyranuronic acid, ...
Authors:Shimizu, T., Nakatsu, T., Miyairi, K., Okuno, T., Kato, H.
Deposit date:2001-11-08
Release date:2002-06-05
Last modified:2015-10-14
Method:X-RAY DIFFRACTION (1.15 Å)
Cite:Active-site architecture of endopolygalacturonase I from Stereum purpureum revealed by crystal structures in native and ligand-bound forms at atomic resolution.
Biochemistry, 41, 2002
1V4G
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CRYSTAL STRUCTURE OF GAMMA-GLUTAMYLCYSTEINE SYNTHETASE FROM ESCHERICHIA COLI B
Descriptor:Glutamate--cysteine ligase
Authors:Hibi, T., Nii, H., Nakatsu, T., Kato, H., Hiratake, J., Oda, J.
Deposit date:2003-11-13
Release date:2004-10-05
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Crystal structure of gamma-glutamylcysteine synthetase: insights into the mechanism of catalysis by a key enzyme for glutathione homeostasis
PROC.NATL.ACAD.SCI.USA, 101, 2004
1VA6
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CRYSTAL STRUCTURE OF GAMMA-GLUTAMYLCYSTEINE SYNTHETASE FROM ESCHERICHIA COLI B COMPLEXED WITH TRANSITION-STATE ANALOGUE
Descriptor:Glutamate--cysteine ligase, MAGNESIUM ION, (2S)-2-AMINO-4-[[(2R)-2-CARBOXYBUTYL](PHOSPHONO)SULFONIMIDOYL]BUTANOIC ACID, ...
Authors:Hibi, T., Nii, H., Nakatsu, T., Kato, H., Hiratake, J., Oda, J.
Deposit date:2004-02-12
Release date:2004-10-05
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Crystal structure of gamma-glutamylcysteine synthetase: insights into the mechanism of catalysis by a key enzyme for glutathione homeostasis
PROC.NATL.ACAD.SCI.USA, 101, 2004
2AE2
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TROPINONE REDUCTASE-II COMPLEXED WITH NADP+ AND PSEUDOTROPINE
Descriptor:PROTEIN (TROPINONE REDUCTASE-II), NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE, PSEUDOTROPINE
Authors:Yamashita, A., Kato, H., Wakatsuki, S., Tomizaki, T., Nakatsu, T., Nakajima, K., Hashimoto, T., Yamada, Y., Oda, J.
Deposit date:1999-01-26
Release date:1999-02-02
Last modified:2019-10-30
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Structure of tropinone reductase-II complexed with NADP+ and pseudotropine at 1.9 A resolution: implication for stereospecific substrate binding and catalysis.
Biochemistry, 38, 1999
1AUN
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PATHOGENESIS-RELATED PROTEIN 5D FROM NICOTIANA TABACUM
Descriptor:PR-5D
Authors:Koiwa, H., Kato, H., Nakatsu, T., Oda, J., Yamada, Y., Sato, F.
Deposit date:1997-08-29
Release date:1998-03-04
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Crystal structure of tobacco PR-5d protein at 1.8 A resolution reveals a conserved acidic cleft structure in antifungal thaumatin-like proteins.
J.Mol.Biol., 286, 1999
1V2B
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CRYSTAL STRUCTURE OF PSBP PROTEIN IN THE OXYGEN-EVOLVING COMPLEX OF PHOTOSYSTEM II FROM HIGHER PLANTS
Descriptor:23-kDa polypeptide of photosystem II oxygen-evolving complex, ALPHA-D-GLUCOSE, SULFATE ION
Authors:Ifuku, K., Nakatsu, T., Kato, H., Sato, F., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2003-10-14
Release date:2004-05-18
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Crystal structure of the PsbP protein of photosystem II from Nicotiana tabacum
Embo Rep., 5, 2004
5XFE
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LUCIFERIN-REGENERATING ENZYME SOLVED BY SAD USING XFEL (REFINED AGAINST 11,000 PATTERNS)
Descriptor:Luciferin regenerating enzyme, MERCURY (II) ION, MAGNESIUM ION, ...
Authors:Yamashita, K., Pan, D., Okuda, T., Murai, T., Kodan, A., Yamaguchi, T., Gomi, K., Kajiyama, N., Kato, H., Ago, H., Yamamoto, M., Nakatsu, T.
Deposit date:2017-04-10
Release date:2017-08-30
Last modified:2017-10-25
Method:X-RAY DIFFRACTION (1.5 Å)
Cite:Experimental phase determination with selenomethionine or mercury-derivatization in serial femtosecond crystallography
IUCrJ, 4, 2017
5D4H
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HIGH-RESOLUTION NITRITE COMPLEX OF A COPPER NITRITE REDUCTASE DETERMINED BY SYNCHROTRON RADIATION CRYSTALLOGRAPHY
Descriptor:Copper-containing nitrite reductase, COPPER (II) ION, NITRITE ION, ...
Authors:Fukuda, Y., Tse, K.M., Nakane, T., Nakatsu, T., Suzuki, M., Sugahara, M., Inoue, S., Masuda, T., Yumoto, F., Matsugaki, N., Nango, E., Tono, K., Joti, Y., Kameshima, T., Song, C., Hatsui, T., Yabashi, M., Nureki, O., Murphy, M.E.P., Inoue, T., Iwata, S., Mizohata, E.
Deposit date:2015-08-07
Release date:2016-03-09
Last modified:2016-06-22
Method:X-RAY DIFFRACTION (1.3 Å)
Cite:Redox-coupled proton transfer mechanism in nitrite reductase revealed by femtosecond crystallography
Proc.Natl.Acad.Sci.USA, 113, 2016
5D4I
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INTACT NITRITE COMPLEX OF A COPPER NITRITE REDUCTASE DETERMINED BY SERIAL FEMTOSECOND CRYSTALLOGRAPHY
Descriptor:Copper-containing nitrite reductase, COPPER (II) ION, NITRITE ION
Authors:Fukuda, Y., Tse, K.M., Nakane, T., Nakatsu, T., Suzuki, M., Sugahara, M., Inoue, S., Masuda, T., Yumoto, F., Matsugaki, N., Nango, E., Tono, K., Joti, Y., Kameshima, T., Song, C., Hatsui, T., Yabashi, M., Nureki, O., Murphy, M.E.P., Inoue, T., Iwata, S., Mizohata, E.
Deposit date:2015-08-07
Release date:2016-03-09
Last modified:2016-06-22
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Redox-coupled proton transfer mechanism in nitrite reductase revealed by femtosecond crystallography
Proc.Natl.Acad.Sci.USA, 113, 2016
5D4J
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CHLORIDE-BOUND FORM OF A COPPER NITRITE REDUCTASE FROM ALCALIGENES FAECALS
Descriptor:Copper-containing nitrite reductase, COPPER (II) ION, CHLORIDE ION, ...
Authors:Fukuda, Y., Tse, K.M., Nakane, T., Nakatsu, T., Suzuki, M., Sugahara, M., Inoue, S., Yumoto, F., Matsugaki, N., Nango, E., Tono, K., Joti, Y., Kameshima, T., Song, C., Yabashi, M., Nureki, O., Murphy, M.E.P., Inoue, T., Iwata, S., Mizohata, E.
Deposit date:2015-08-07
Release date:2016-03-09
Last modified:2016-06-22
Method:X-RAY DIFFRACTION (2 Å)
Cite:Redox-coupled proton transfer mechanism in nitrite reductase revealed by femtosecond crystallography
Proc.Natl.Acad.Sci.USA, 113, 2016
5D9B
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LUCIFERIN-REGENERATING ENZYME SOLVED BY SIRAS USING XFEL (REFINED AGAINST NATIVE DATA)
Descriptor:Luciferin regenerating enzyme, MAGNESIUM ION, (4S)-2-METHYL-2,4-PENTANEDIOL
Authors:Yamashita, K., Pan, D., Okuda, T., Murai, T., Kodan, A., Yamaguchi, T., Gomi, K., Kajiyama, N., Kato, H., Ago, H., Yamamoto, M., Nakatsu, T.
Deposit date:2015-08-18
Release date:2015-09-23
Method:X-RAY DIFFRACTION (1.5 Å)
Cite:An isomorphous replacement method for efficient de novo phasing for serial femtosecond crystallography.
Sci Rep, 5, 2015
5D9C
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LUCIFERIN-REGENERATING ENZYME SOLVED BY SIRAS USING XFEL (REFINED AGAINST HG DERIVATIVE DATA)
Descriptor:Luciferin regenerating enzyme, MAGNESIUM ION, (4S)-2-METHYL-2,4-PENTANEDIOL, ...
Authors:Yamashita, K., Pan, D., Okuda, T., Murai, T., Kodan, A., Yamaguchi, T., Gomi, K., Kajiyama, N., Kato, H., Ago, H., Yamamoto, M., Nakatsu, T.
Deposit date:2015-08-18
Release date:2015-09-23
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:An isomorphous replacement method for efficient de novo phasing for serial femtosecond crystallography.
Sci Rep, 5, 2015
5D9D
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LUCIFERIN-REGENERATING ENZYME SOLVED BY SAD USING SYNCHROTRON RADIATION AT ROOM TEMPERATURE
Descriptor:Luciferin regenerating enzyme, MAGNESIUM ION, MERCURY (II) ION, ...
Authors:Yamashita, K., Pan, D., Okuda, T., Murai, T., Kodan, A., Yamaguchi, T., Gomi, K., Kajiyama, N., Kato, H., Ago, H., Yamamoto, M., Nakatsu, T.
Deposit date:2015-08-18
Release date:2015-09-23
Method:X-RAY DIFFRACTION (1.701 Å)
Cite:An isomorphous replacement method for efficient de novo phasing for serial femtosecond crystallography.
Sci Rep, 5, 2015
5F7A
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NITRITE COMPLEX STRUCTURE OF COPPER NITRITE REDUCTASE FROM ALCALIGENES FAECALIS DETERMINED AT 293 K
Descriptor:Copper-containing nitrite reductase, COPPER (II) ION, NITRITE ION
Authors:Fukuda, Y., Tse, K.M., Nakane, T., Nakatsu, T., Suzuki, M., Sugahara, M., Inoue, S., Masuda, T., Yumoto, F., Matsugaki, N., Nango, E., Tono, K., Joti, Y., Kameshima, T., Song, C., Hatsui, T., Yabashi, M., Nureki, O., Murphy, M.E.P., Inoue, T., Iwata, S., Mizohata, E.
Deposit date:2015-12-07
Release date:2016-03-16
Last modified:2016-06-22
Method:X-RAY DIFFRACTION (1.54 Å)
Cite:Redox-coupled proton transfer mechanism in nitrite reductase revealed by femtosecond crystallography
Proc.Natl.Acad.Sci.USA, 113, 2016
5F7B
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RESTING STATE STRUCTURE OF CUNIR FORM ALCALIGENES FAECALIS DETERMINED AT 293 K
Descriptor:Copper-containing nitrite reductase, COPPER (II) ION
Authors:Fukuda, Y., Tse, K.M., Nakane, T., Nakatsu, T., Suzuki, M., Sugahara, M., Inoue, S., Masuda, T., Yumoto, F., Matsugaki, N., Nango, E., Tono, K., Joti, Y., Kameshima, T., Song, C., Hatsui, T., Yabashi, M., Nureki, O., Murphy, M.E.P., Inoue, T., Iwata, S., Mizohata, E.
Deposit date:2015-12-07
Release date:2016-03-16
Last modified:2016-06-22
Method:X-RAY DIFFRACTION (1.56 Å)
Cite:Redox-coupled proton transfer mechanism in nitrite reductase revealed by femtosecond crystallography
Proc.Natl.Acad.Sci.USA, 113, 2016
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