3A6F
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![BU of 3a6f by Molmil](/molmil-images/mine/3a6f) | W174F mutant creatininase, Type II | Descriptor: | CACODYLATE ION, Creatinine amidohydrolase, MANGANESE (II) ION, ... | Authors: | Nakajima, Y, Yamashita, K, Ito, K, Yoshimoto, T. | Deposit date: | 2009-08-31 | Release date: | 2010-02-09 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (1.78 Å) | Cite: | Substitution of Glu122 by glutamine revealed the function of the second water molecule as a proton donor in the binuclear metal enzyme creatininase J.Mol.Biol., 396, 2010
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3A6G
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![BU of 3a6g by Molmil](/molmil-images/mine/3a6g) | W154F mutant creatininase | Descriptor: | Creatinine amidohydrolase, MANGANESE (II) ION, ZINC ION | Authors: | Nakajima, Y, Yamashita, K, Ito, K, Yoshimoto, T. | Deposit date: | 2009-08-31 | Release date: | 2010-02-09 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Substitution of Glu122 by glutamine revealed the function of the second water molecule as a proton donor in the binuclear metal enzyme creatininase J.Mol.Biol., 396, 2010
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3A6E
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![BU of 3a6e by Molmil](/molmil-images/mine/3a6e) | W174F mutant creatininase, type I | Descriptor: | CACODYLATE ION, Creatinine amidohydrolase, MANGANESE (II) ION, ... | Authors: | Nakajima, Y, Yamashita, K, Ito, K, Yoshimoto, T. | Deposit date: | 2009-08-31 | Release date: | 2010-02-09 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Substitution of Glu122 by glutamine revealed the function of the second water molecule as a proton donor in the binuclear metal enzyme creatininase J.Mol.Biol., 396, 2010
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3A6K
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![BU of 3a6k by Molmil](/molmil-images/mine/3a6k) | The E122Q mutant creatininase, Mn-Zn type | Descriptor: | CHLORIDE ION, Creatinine amidohydrolase, MANGANESE (II) ION, ... | Authors: | Nakajima, Y, Yamashita, K, Ito, K, Yoshimoto, T. | Deposit date: | 2009-09-02 | Release date: | 2010-02-09 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | Substitution of Glu122 by glutamine revealed the function of the second water molecule as a proton donor in the binuclear metal enzyme creatininase J.Mol.Biol., 396, 2010
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2ZXG
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![BU of 2zxg by Molmil](/molmil-images/mine/2zxg) | Aminopeptidase N complexed with the aminophosphinic inhibitor of PL250, a transition state analogue | Descriptor: | Aminopeptidase N, GLYCEROL, N-{(2S)-3-[(1R)-1-aminoethyl](hydroxy)phosphoryl-2-benzylpropanoyl}-L-phenylalanine, ... | Authors: | Nakajima, Y, Ito, K, Yoshimoto, T. | Deposit date: | 2008-12-24 | Release date: | 2009-08-25 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (1.55 Å) | Cite: | Structure of aminopeptidase N from Escherichia coli complexed with the transition-state analogue aminophosphinic inhibitor PL250 Acta Crystallogr.,Sect.D, 65, 2009
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6M4K
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![BU of 6m4k by Molmil](/molmil-images/mine/6m4k) | X-ray crystal structure of wild type alpha-amylase I from Eisenia fetida | Descriptor: | ACETATE ION, Alpha-amylase, CALCIUM ION, ... | Authors: | Hirano, Y, Tsukamoto, K, Ariki, S, Naka, Y, Ueda, M, Tamada, T. | Deposit date: | 2020-03-07 | Release date: | 2020-09-16 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.3 Å) | Cite: | X-ray crystallographic structural studies of alpha-amylase I from Eisenia fetida. Acta Crystallogr D Struct Biol, 76, 2020
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6M4M
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![BU of 6m4m by Molmil](/molmil-images/mine/6m4m) | X-ray crystal structure of the E249Q mutan of alpha-amylase I and maltohexaose complex from Eisenia fetida | Descriptor: | Alpha-amylase, CALCIUM ION, CHLORIDE ION, ... | Authors: | Hirano, Y, Tsukamoto, K, Ariki, S, Naka, Y, Ueda, M, Tamada, T. | Deposit date: | 2020-03-07 | Release date: | 2020-09-16 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.7 Å) | Cite: | X-ray crystallographic structural studies of alpha-amylase I from Eisenia fetida. Acta Crystallogr D Struct Biol, 76, 2020
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6M4L
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![BU of 6m4l by Molmil](/molmil-images/mine/6m4l) | X-ray crystal structure of the E249Q mutant of alpha-amylase I from Eisenia fetida | Descriptor: | 1,2-ETHANEDIOL, 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, ACETATE ION, ... | Authors: | Hirano, Y, Tsukamoto, K, Ariki, S, Naka, Y, Ueda, M, Tamada, T. | Deposit date: | 2020-03-07 | Release date: | 2020-09-16 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | X-ray crystallographic structural studies of alpha-amylase I from Eisenia fetida. Acta Crystallogr D Struct Biol, 76, 2020
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1EH1
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![BU of 1eh1 by Molmil](/molmil-images/mine/1eh1) | RIBOSOME RECYCLING FACTOR FROM THERMUS THERMOPHILUS | Descriptor: | RIBOSOME RECYCLING FACTOR | Authors: | Toyoda, T, Tin, O.F, Ito, K, Fujiwara, T, Kumasaka, T, Yamamoto, M, Garber, M.B, Nakamura, Y. | Deposit date: | 2000-02-18 | Release date: | 2000-11-15 | Last modified: | 2024-02-07 | Method: | X-RAY DIFFRACTION (2.6 Å) | Cite: | Crystal structure combined with genetic analysis of the Thermus thermophilus ribosome recycling factor shows that a flexible hinge may act as a functional switch. RNA, 6, 2000
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4UB6
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![BU of 4ub6 by Molmil](/molmil-images/mine/4ub6) | Native structure of photosystem II (dataset-1) by a femtosecond X-ray laser | Descriptor: | 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL, 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE, 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE, ... | Authors: | Suga, M, Akita, F, Hirata, K, Ueno, G, Murakami, H, Nakajima, Y, Shimizu, T, Yamashita, K, Yamamoto, M, Ago, H, Shen, J.R. | Deposit date: | 2014-08-12 | Release date: | 2014-12-03 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (1.95 Å) | Cite: | Native structure of photosystem II at 1.95 angstrom resolution viewed by femtosecond X-ray pulses. Nature, 517, 2015
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4ZKB
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![BU of 4zkb by Molmil](/molmil-images/mine/4zkb) | The chemokine binding protein of orf virus complexed with CCL3 | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, C-C motif chemokine 3, Chemokine binding protein, ... | Authors: | Knapp, K.M, Nakatani, Y, Krause, K.L. | Deposit date: | 2015-04-30 | Release date: | 2015-07-08 | Last modified: | 2023-09-27 | Method: | X-RAY DIFFRACTION (2.9 Å) | Cite: | Structures of Orf Virus Chemokine Binding Protein in Complex with Host Chemokines Reveal Clues to Broad Binding Specificity. Structure, 23, 2015
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4ZU3
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![BU of 4zu3 by Molmil](/molmil-images/mine/4zu3) | Halohydrin hydrogen-halide-lyases, HheB | Descriptor: | 3-hydroxypentanedinitrile, Halohydrin epoxidase B, MAGNESIUM ION, ... | Authors: | Watanabe, F, Yu, F, Ohtaki, A, Yamanaka, Y, Noguchi, K, Yohda, M, Odaka, M. | Deposit date: | 2015-05-15 | Release date: | 2015-11-04 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | Crystal structures of halohydrin hydrogen-halide-lyases from Corynebacterium sp. N-1074 Proteins, 83, 2015
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1J2U
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![BU of 1j2u by Molmil](/molmil-images/mine/1j2u) | Creatininase Zn | Descriptor: | SULFATE ION, ZINC ION, creatinine amidohydrolase | Authors: | Yoshimoto, T, Tanaka, N, Kanada, N, Inoue, T, Nakajima, Y, Haratake, M, Nakamura, K.T, Xu, Y, Ito, K. | Deposit date: | 2003-01-11 | Release date: | 2004-01-27 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (1.85 Å) | Cite: | Crystal structures of creatininase reveal the substrate binding site and provide an insight into the catalytic mechanism J.Mol.Biol., 337, 2004
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1J2T
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![BU of 1j2t by Molmil](/molmil-images/mine/1j2t) | Creatininase Mn | Descriptor: | MANGANESE (II) ION, SULFATE ION, ZINC ION, ... | Authors: | Yoshimoto, T, Tanaka, N, Kanada, N, Inoue, T, Nakajima, Y, Haratake, M, Nakamura, K.T, Xu, Y, Ito, K. | Deposit date: | 2003-01-11 | Release date: | 2004-01-27 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Crystal structures of creatininase reveal the substrate binding site and provide an insight into the catalytic mechanism J.Mol.Biol., 337, 2004
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2RT8
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![BU of 2rt8 by Molmil](/molmil-images/mine/2rt8) | Structure of metallo-dna in solution | Descriptor: | DNA (5'-D(*CP*GP*CP*GP*TP*TP*GP*TP*CP*C)-3'), DNA (5'-D(*GP*GP*AP*CP*TP*TP*CP*GP*CP*G)-3'), MERCURY (II) ION | Authors: | Yamaguchi, H, Sebera, J, Kondo, J, Oda, S, Komuro, T, Kawamura, T, Dairaku, T, Kondo, Y, Okamoto, I, Ono, A, Burda, J.V, Kojima, C, Sychrovsky, V, Tanaka, Y. | Deposit date: | 2013-06-18 | Release date: | 2014-03-05 | Last modified: | 2024-05-15 | Method: | SOLUTION NMR | Cite: | The structure of metallo-DNA with consecutive thymine-HgII-thymine base pairs explains positive entropy for the metallo base pair formation. Nucleic Acids Res., 42, 2014
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2RRC
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![BU of 2rrc by Molmil](/molmil-images/mine/2rrc) | Solution Structure of RNA aptamer against AML1 Runt domain | Descriptor: | 5'-R(P*GP*GP*AP*CP*CP*CP*(AP7)P*CP*CP*AP*CP*GP*GP*CP*GP*AP*GP*GP*UP*CP*CP*A)-3' | Authors: | Nomura, Y, Fujiwara, K, Chiba, M, Fukunaga, J, Tanaka, Y, Iibuchi, H, Tanaka, T, Nakamura, Y, Kawai, G, Kozu, T, Sakamoto, T. | Deposit date: | 2010-06-23 | Release date: | 2011-06-29 | Last modified: | 2024-05-01 | Method: | SOLUTION NMR | Cite: | A novel high affinity RNA motif that mimics DNA in AML1 Runt domain binding To be Published
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1V7Z
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![BU of 1v7z by Molmil](/molmil-images/mine/1v7z) | creatininase-product complex | Descriptor: | MANGANESE (II) ION, N-[(E)-AMINO(IMINO)METHYL]-N-METHYLGLYCINE, SULFATE ION, ... | Authors: | Yoshimoto, T, Tanaka, N, Kanada, N, Inoue, T, Nakajima, Y, Haratake, M, Nakamura, K.T, Xu, Y, Ito, K. | Deposit date: | 2003-12-26 | Release date: | 2004-01-27 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | Crystal structures of creatininase reveal the substrate binding site and provide an insight into the catalytic mechanism J.Mol.Biol., 337, 2004
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5HJ7
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![BU of 5hj7 by Molmil](/molmil-images/mine/5hj7) | Glutamate Racemase Mycobacterium tuberculosis (MurI) with bound D-glutamate, 2.3 Angstrom resolution, X-ray diffraction | Descriptor: | D-GLUTAMIC ACID, Glutamate racemase | Authors: | Poen, S, Nakatani, Y, Krause, K. | Deposit date: | 2016-01-12 | Release date: | 2016-05-25 | Last modified: | 2024-03-06 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Exploring the structure of glutamate racemase from Mycobacterium tuberculosis as a template for anti-mycobacterial drug discovery. Biochem. J., 473, 2016
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3VQU
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![BU of 3vqu by Molmil](/molmil-images/mine/3vqu) | CRYSTAL STRUCTURE OF HUMAN MPS1 CATALYTIC DOMAIN IN COMPLEX WITH 4-[(4-amino-5-cyano-6-ethoxypyridin-2- yl)amino]benzamide | Descriptor: | 4-[(4-amino-5-cyano-6-ethoxypyridin-2-yl)amino]benzamide, Dual specificity protein kinase TTK, IODIDE ION | Authors: | Kusakabe, K, Ide, N, Daigo, Y, Itoh, T, Higashino, K, Okano, Y, Tadano, G, Tachibana, Y, Sato, Y, Inoue, M, Wada, T, Iguchi, M, Kanazawa, T, Ishioka, Y, Dohi, K, Tagashira, S, Kido, Y, Sakamoto, S, Yasuo, K, Maeda, M, Yamamoto, T, Higaki, M, Endoh, T, Ueda, K, Shiota, T, Murai, H, Nakamura, Y. | Deposit date: | 2012-03-30 | Release date: | 2012-06-27 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (2.4 Å) | Cite: | Diaminopyridine-based potent and selective mps1 kinase inhibitors binding to an unusual flipped-Peptide conformation. Acs Med.Chem.Lett., 3, 2012
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5IJW
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![BU of 5ijw by Molmil](/molmil-images/mine/5ijw) | Glutamate Racemase (MurI) from Mycobacterium smegmatis with bound D-glutamate, 1.8 Angstrom resolution, X-ray diffraction | Descriptor: | D-GLUTAMIC ACID, Glutamate racemase, IODIDE ION | Authors: | Poen, S, Nakatani, Y, Krause, K. | Deposit date: | 2016-03-02 | Release date: | 2016-05-25 | Last modified: | 2023-09-27 | Method: | X-RAY DIFFRACTION (1.76 Å) | Cite: | Exploring the structure of glutamate racemase from Mycobacterium tuberculosis as a template for anti-mycobacterial drug discovery. Biochem. J., 473, 2016
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4G5H
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![BU of 4g5h by Molmil](/molmil-images/mine/4g5h) | Crystal structure of capsular polysaccharide synthesizing enzyme CapE from Staphylococcus aureus in complex with by-product | Descriptor: | Capsular polysaccharide synthesis enzyme Cap8E, FORMIC ACID, NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE, ... | Authors: | Miyafusa, T, Caaveiro, J.M.M, Tanaka, Y, Tsumoto, K. | Deposit date: | 2012-07-18 | Release date: | 2013-08-28 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (1.88 Å) | Cite: | Dynamic elements govern the catalytic activity of CapE, a capsular polysaccharide-synthesizing enzyme from Staphylococcus aureus. Febs Lett., 587, 2013
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2RVP
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![BU of 2rvp by Molmil](/molmil-images/mine/2rvp) | Solution structure of DNA Containing Metallo-Base-Pair | Descriptor: | DNA (5'-D(*TP*AP*AP*TP*AP*TP*AP*CP*TP*TP*AP*AP*TP*TP*A)-3'), DNA (5'-D(*TP*AP*AP*TP*TP*AP*AP*CP*TP*AP*TP*AP*TP*TP*A)-3'), SILVER ION | Authors: | Dairaku, T, Furuita, K, Sato, H, Sebera, J, Nakashima, K, Kondo, J, Yamanaka, D, Kondo, Y, Okamoto, I, Ono, A, Sychrovsky, V, Kojima, C, Tanaka, Y. | Deposit date: | 2016-03-22 | Release date: | 2016-08-31 | Last modified: | 2024-05-15 | Method: | SOLUTION NMR | Cite: | Structure Determination of an Ag(I) -Mediated Cytosine-Cytosine Base Pair within DNA Duplex in Solution with (1) H/(15) N/(109) Ag NMR Spectroscopy. Chemistry, 22, 2016
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3VV6
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![BU of 3vv6 by Molmil](/molmil-images/mine/3vv6) | Crystal Structure of beta secetase in complex with 2-amino-3-methyl-6-((1S, 2R)-2-phenylcyclopropyl)pyrimidin-4(3H)-one | Descriptor: | 2-amino-3-methyl-6-[(1S,2R)-2-phenylcyclopropyl]pyrimidin-4(3H)-one, Beta-secretase 1, GLYCEROL, ... | Authors: | Yonezawa, S, Yamamoto, T, Yamakawa, H, Muto, C, Hosono, M, Hattori, K, Higashino, K, Sakagami, M, Togame, H, Tanaka, Y, Nakano, T, Takemoto, H, Arisawa, M, Shuto, S. | Deposit date: | 2012-07-17 | Release date: | 2012-10-24 | Last modified: | 2017-11-22 | Method: | X-RAY DIFFRACTION (2.05 Å) | Cite: | Conformational restriction approach to beta-secretase (BACE1) inhibitors: effect of a cyclopropane ring to induce an alternative binding mode J.Med.Chem., 55, 2012
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7E6Z
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![BU of 7e6z by Molmil](/molmil-images/mine/7e6z) | Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin: 50 microsecond structure | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Archaeal-type opsin 1,Archaeal-type opsin 2, ... | Authors: | Oda, K, Nomura, T, Nakane, T, Yamashita, K, Inoue, K, Ito, S, Vierock, J, Hirata, K, Maturana, A.D, Katayama, K, Ikuta, T, Ishigami, I, Izume, T, Umeda, R, Eguma, R, Oishi, S, Kasuya, G, Kato, T, Kusakizako, T, Shihoya, W, Shimada, H, Takatsuji, T, Takemoto, M, Taniguchi, R, Tomita, A, Nakamura, R, Fukuda, M, Miyauchi, H, Lee, Y, Nango, E, Tanaka, R, Tanaka, T, Sugahara, M, Kimura, T, Shimamura, T, Fujiwara, T, Yamanaka, Y, Owada, S, Joti, Y, Tono, K, Ishitani, R, Hayashi, S, Kandori, H, Hegemann, P, Iwata, S, Kubo, M, Nishizawa, T, Nureki, O. | Deposit date: | 2021-02-24 | Release date: | 2021-04-07 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin. Elife, 10, 2021
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7E6Y
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![BU of 7e6y by Molmil](/molmil-images/mine/7e6y) | Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin: 1 microsecond structure | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Archaeal-type opsin 1,Archaeal-type opsin 2, ... | Authors: | Oda, K, Nomura, T, Nakane, T, Yamashita, K, Inoue, K, Ito, S, Vierock, J, Hirata, K, Maturana, A.D, Katayama, K, Ikuta, T, Ishigami, I, Izume, T, Umeda, R, Eguma, R, Oishi, S, Kasuya, G, Kato, T, Kusakizako, T, Shihoya, W, Shimada, H, Takatsuji, T, Takemoto, M, Taniguchi, R, Tomita, A, Nakamura, R, Fukuda, M, Miyauchi, H, Lee, Y, Nango, E, Tanaka, R, Tanaka, T, Sugahara, M, Kimura, T, Shimamura, T, Fujiwara, T, Yamanaka, Y, Owada, S, Joti, Y, Tono, K, Ishitani, R, Hayashi, S, Kandori, H, Hegemann, P, Iwata, S, Kubo, M, Nishizawa, T, Nureki, O. | Deposit date: | 2021-02-24 | Release date: | 2021-04-07 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin. Elife, 10, 2021
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