Author results

3X2O
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NEUTRON AND X-RAY JOINT REFINED STRUCTURE OF PCCEL45A APO FORM AT 298K.
Descriptor:Endoglucanase V-like protein
Authors:Nakamura, A., Ishida, T., Kusaka, K., Yamada, T., Tanaka, I., Niimura, N., Samejima, M., Igarashi, K.
Deposit date:2014-12-22
Release date:2015-10-07
Last modified:2018-05-16
Method:NEUTRON DIFFRACTION (1.5 Å), X-RAY DIFFRACTION
Cite:Newton s cradle proton relay with amide imidic acid tautomerization in inverting cellulase visualized by neutron crystallography
SCI ADV, 1, 2015
3X2P
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NEUTRON AND X-RAY JOINT REFINED STRUCTURE OF PCCEL45A WITH CELLOPENTAOSE AT 298K.
Descriptor:Endoglucanase V-like protein, CELLOPENTAOSE
Authors:Nakamura, A., Ishida, T., Kusaka, K., Yamada, T., Tanaka, I., Niimura, N., Samejima, M., Igarashi, K.
Deposit date:2014-12-22
Release date:2015-10-14
Last modified:2018-05-16
Method:NEUTRON DIFFRACTION (1.518 Å), X-RAY DIFFRACTION
Cite:Newton s cradle proton relay with amide imidic acid tautomerization in inverting cellulase visualized by neutron crystallography
SCI ADV, 1, 2015
4ZHR
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STRUCTURE OF HIV-1 RT Q151M MUTANT
Descriptor:RT p66 subunit, RT p51 subunit
Authors:Nakamura, A., Tamura, N., Yasutake, Y.
Deposit date:2015-04-27
Release date:2015-11-11
Last modified:2017-09-27
Method:X-RAY DIFFRACTION (2.601 Å)
Cite:Structure of the HIV-1 reverse transcriptase Q151M mutant: insights into the inhibitor resistance of HIV-1 reverse transcriptase and the structure of the nucleotide-binding pocket of Hepatitis B virus polymerase.
Acta Crystallogr.,Sect.F, 71, 2015
4ZM7
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PCCEL45A N105D MUTATNT AT CRYO CONDITION
Descriptor:Endoglucanase V-like protein
Authors:Nakamura, A., Ishida, T., Samejima, M., Igarashi, K.
Deposit date:2015-05-02
Release date:2015-09-02
Method:X-RAY DIFFRACTION (0.701 Å)
Cite:"Newton's cradle" proton relay with amide-imidic acid tautomerization in inverting cellulase visualized by neutron crystallography
Sci Adv, 1, 2015
5Z7M
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SMCHIA SLIDING-INTERMEDIATE WITH CHITOHEXAOSE
Descriptor:Chitinase A, N-ACETYL-D-GLUCOSAMINE, DI(N-ACETYL-D-GLUCOSAMINE), ...
Authors:Nakamura, A., Iino, R.
Deposit date:2018-01-30
Release date:2018-09-26
Last modified:2018-10-03
Method:X-RAY DIFFRACTION (2 Å)
Cite:Processive chitinase is Brownian monorail operated by fast catalysis after peeling rail from crystalline chitin.
Nat Commun, 9, 2018
5Z7N
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SMCHIA SLIDING-INTERMEDIATE WITH CHITOPENTAOSE
Descriptor:Chitinase A, N-ACETYL-D-GLUCOSAMINE, DI(N-ACETYL-D-GLUCOSAMINE), ...
Authors:Nakamura, A., Iino, R.
Deposit date:2018-01-30
Release date:2018-09-26
Last modified:2018-10-03
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Processive chitinase is Brownian monorail operated by fast catalysis after peeling rail from crystalline chitin.
Nat Commun, 9, 2018
5Z7O
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SMCHIA SLIDING-INTERMEDIATE WITH CHITOTETRAOSE
Descriptor:Chitinase A, GLYCEROL, DI(N-ACETYL-D-GLUCOSAMINE)
Authors:Nakamura, A., Iino, R.
Deposit date:2018-01-30
Release date:2018-09-26
Last modified:2018-10-03
Method:X-RAY DIFFRACTION (2 Å)
Cite:Processive chitinase is Brownian monorail operated by fast catalysis after peeling rail from crystalline chitin.
Nat Commun, 9, 2018
5Z7P
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SMCHIA SLIDING-INTERMEDIATE WITH CHITOTRIOSE
Descriptor:Chitinase A, N-ACETYL-D-GLUCOSAMINE, GLYCEROL
Authors:Nakamura, A., Iino, R.
Deposit date:2018-01-30
Release date:2018-09-26
Last modified:2018-10-03
Method:X-RAY DIFFRACTION (2 Å)
Cite:Processive chitinase is Brownian monorail operated by fast catalysis after peeling rail from crystalline chitin.
Nat Commun, 9, 2018
4TQD
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CRYSTAL STRUCTURE OF THE C-TERMINAL DOMAIN OF IFRS BOUND WITH 3-IODO-L-PHE AND ATP
Descriptor:Pyrrolysine--tRNA ligase, MAGNESIUM ION, ADENOSINE-5'-TRIPHOSPHATE, ...
Authors:Nakamura, A., O'Donoghue, P., Soll, D.
Deposit date:2014-06-11
Release date:2014-11-12
Last modified:2014-12-03
Method:X-RAY DIFFRACTION (2.1429 Å)
Cite:Polyspecific pyrrolysyl-tRNA synthetases from directed evolution.
Proc.Natl.Acad.Sci.USA, 111, 2014
4TQF
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CRYSTAL STRUCTURE OF THE C-TERMINAL DOMAIN OF IFRS BOUND WITH 2-(5-BROMOTHIENYL)-L-ALA AND ATP
Descriptor:Pyrrolysine--tRNA ligase, MAGNESIUM ION, ADENOSINE-5'-TRIPHOSPHATE, ...
Authors:Nakamura, A., O'Donoghue, P., Soll, D.
Deposit date:2014-06-11
Release date:2014-11-12
Last modified:2014-12-03
Method:X-RAY DIFFRACTION (2.7143 Å)
Cite:Polyspecific pyrrolysyl-tRNA synthetases from directed evolution.
Proc.Natl.Acad.Sci.USA, 111, 2014
4ZIB
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CRYSTAL STRUCTURE OF THE C-TERMINAL DOMAIN OF PYLRS MUTANT BOUND WITH 3-BENZOTHIENYL-L-ALANINE AND ATP
Descriptor:Pyrrolysine--tRNA ligase, MAGNESIUM ION, ADENOSINE-5'-TRIPHOSPHATE, ...
Authors:Nakamura, A., Guo, L.T., Wang, Y.S., Soll, D.
Deposit date:2015-04-28
Release date:2016-03-02
Method:X-RAY DIFFRACTION (2.054 Å)
Cite:Probing the active site tryptophan of Staphylococcus aureus thioredoxin with an analog.
Nucleic Acids Res., 43, 2015
5DNU
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CRYSTAL STRUCTURE OF STRIGA KAI2-LIKE PROTEIN IN COMPLEX WITH KARRIKIN
Descriptor:ShKAI2iB, 3-methyl-2H-furo[2,3-c]pyran-2-one, FORMIC ACID, ...
Authors:Xu, Y., Miyakawa, T., Nakamura, A., Tanokura, M.
Deposit date:2015-09-10
Release date:2016-08-17
Last modified:2016-08-24
Method:X-RAY DIFFRACTION (1.2 Å)
Cite:Structural basis of unique ligand specificity of KAI2-like protein from parasitic weed Striga hermonthica
Sci Rep, 6, 2016
5DNV
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CRYSTAL STRUCTURE OF KAI2-LIKE PROTEIN FROM STRIGA (APO STATE 2)
Descriptor:ShKAI2iB, FORMIC ACID, BENZOIC ACID
Authors:Xu, Y., Miyakawa, T., Nakamura, A., Tanokura, M.
Deposit date:2015-09-10
Release date:2016-08-17
Last modified:2016-08-24
Method:X-RAY DIFFRACTION (2.65 Å)
Cite:Structural basis of unique ligand specificity of KAI2-like protein from parasitic weed Striga hermonthica
Sci Rep, 6, 2016
5DNW
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CRYSTAL STRUCTURE OF KAI2-LIKE PROTEIN FROM STRIGA (APO STATE 1)
Descriptor:ShKAI2iB, FORMIC ACID, 1,2-ETHANEDIOL, ...
Authors:Xu, Y., Miyakawa, T., Nakamura, A., Tanokura, M.
Deposit date:2015-09-10
Release date:2016-08-17
Last modified:2016-08-24
Method:X-RAY DIFFRACTION (2.02 Å)
Cite:Structural basis of unique ligand specificity of KAI2-like protein from parasitic weed Striga hermonthica
Sci Rep, 6, 2016
5YA8
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CRYSTAL STRUCTURE OF SCYLLO-INOSITOL DEHYDROGENASE WITH L-GLUCOSE DEHYDROGENASE ACTIVITY COMPLEXED WITH MYO-INOSITOL
Descriptor:Scyllo-inositol dehydrogenase with L-glucose dehydrogenase activity, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, 1,2,3,4,5,6-HEXAHYDROXY-CYCLOHEXANE
Authors:Fukano, K., Shimizu, T., Sasaki, Y., Nakamura, A., Yajima, S.
Deposit date:2017-08-31
Release date:2018-05-23
Last modified:2018-06-13
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Structural basis of L-glucose oxidation by scyllo-inositol dehydrogenase: Implications for a novel enzyme subfamily classification
PLoS ONE, 13, 2018
5YAB
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CRYSTAL STRUCTURE OF SCYLLO-INOSITOL DEHYDROGENASE WITH L-GLUCOSE DEHYDROGENASE ACTIVITY
Descriptor:Scyllo-inositol dehydrogenase with L-glucose dehydrogenase activity, ACETATE ION
Authors:Fukano, K., Shimizu, T., Sasaki, Y., Nakamura, A., Yajima, S.
Deposit date:2017-08-31
Release date:2018-05-23
Last modified:2018-06-13
Method:X-RAY DIFFRACTION (1.75 Å)
Cite:Structural basis of L-glucose oxidation by scyllo-inositol dehydrogenase: Implications for a novel enzyme subfamily classification
PLoS ONE, 13, 2018
5YAP
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CRYSTAL STRUCTURE OF SCYLLO-INOSITOL DEHYDROGENASE WITH L-GLUCOSE DEHYDROGENASE ACTIVITY COMPLEXED WITH L-GLUCONO-1,5-LACTONE
Descriptor:Scyllo-inositol dehydrogenase with L-glucose dehydrogenase activity, 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE, (3~{S},4~{R},5~{R},6~{S})-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-one
Authors:Fukano, K., Shimizu, T., Sasaki, Y., Nakamura, A., Yajima, S.
Deposit date:2017-09-01
Release date:2018-05-23
Last modified:2018-06-13
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Structural basis of L-glucose oxidation by scyllo-inositol dehydrogenase: Implications for a novel enzyme subfamily classification
PLoS ONE, 13, 2018
5YAQ
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CRYSTAL STRUCTURE OF SCYLLO-INOSITOL DEHYDROGENASE WITH L-GLUCOSE DEHYDROGENASE ACTIVITY COMPLEXED WITH SCYLLO-INOSOSE
Descriptor:Scyllo-inositol dehydrogenase with L-glucose dehydrogenase activity, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, (2R,3S,4s,5R,6S)-2,3,4,5,6-pentahydroxycyclohexanone
Authors:Fukano, K., Shimizu, T., Sasaki, Y., Nakamura, A., Yajima, S.
Deposit date:2017-09-01
Release date:2018-05-23
Last modified:2018-06-13
Method:X-RAY DIFFRACTION (1.99 Å)
Cite:Structural basis of L-glucose oxidation by scyllo-inositol dehydrogenase: Implications for a novel enzyme subfamily classification
PLoS ONE, 13, 2018
5Z7W
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CRYSTAL STRUCTURE OF STRIGA HERMONTHICA HTL1 (SHHTL1)
Descriptor:Hyposensitive to light 1, MAGNESIUM ION, SODIUM ION, ...
Authors:Xu, Y., Miyakawa, T., Nakamura, A., Tanokura, M.
Deposit date:2018-01-30
Release date:2018-08-29
Last modified:2019-03-13
Method:X-RAY DIFFRACTION (1.657 Å)
Cite:Structural analysis of HTL and D14 proteins reveals the basis for ligand selectivity in Striga.
Nat Commun, 9, 2018
5Z7X
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CRYSTAL STRUCTURE OF STRIGA HERMONTHICA HTL4 (SHHTL4)
Descriptor:Hyposensitive to light 4, 1,2-ETHANEDIOL, MAGNESIUM ION
Authors:Xu, Y., Miyakawa, T., Nakamura, A., Tanokura, M.
Deposit date:2018-01-30
Release date:2018-08-29
Last modified:2019-03-13
Method:X-RAY DIFFRACTION (2.055 Å)
Cite:Structural analysis of HTL and D14 proteins reveals the basis for ligand selectivity in Striga.
Nat Commun, 9, 2018
5Z7Y
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CRYSTAL STRUCTURE OF STRIGA HERMONTHICA HTL7 (SHHTL7)
Descriptor:Hyposensitive to light 7, 1,4-DIETHYLENE DIOXIDE, MAGNESIUM ION, ...
Authors:Xu, Y., Miyakawa, T., Nakamura, A., Tanokura, M.
Deposit date:2018-01-30
Release date:2018-08-29
Last modified:2019-03-13
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Structural analysis of HTL and D14 proteins reveals the basis for ligand selectivity in Striga.
Nat Commun, 9, 2018
5Z7Z
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CRYSTAL STRUCTURE OF STRIGA HERMONTHICA DWARF14 (SHD14)
Descriptor:Dwarf 14, DI(HYDROXYETHYL)ETHER, GLYCEROL, ...
Authors:Xu, Y., Miyakawa, T., Nakamura, A., Tanokura, M.
Deposit date:2018-01-30
Release date:2018-08-29
Last modified:2019-03-13
Method:X-RAY DIFFRACTION (1.978 Å)
Cite:Structural analysis of HTL and D14 proteins reveals the basis for ligand selectivity in Striga.
Nat Commun, 9, 2018
2DB3
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STRUCTURAL BASIS FOR RNA UNWINDING BY THE DEAD-BOX PROTEIN DROSOPHILA VASA
Descriptor:5'-R(*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3', ATP-dependent RNA helicase vasa, MAGNESIUM ION, ...
Authors:Sengoku, T., Nureki, O., Nakamura, A., Kobayashi, S., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2005-12-14
Release date:2006-05-02
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Structural basis for RNA unwinding by the DEAD-box protein Drosophila Vasa.
Cell(Cambridge,Mass.), 125, 2006
2E0I
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CRYSTAL STRUCTURE OF ARCHAEAL PHOTOLYASE FROM SULFOLOBUS TOKODAII WITH TWO FAD MOLECULES: IMPLICATION OF A NOVEL LIGHT-HARVESTING COFACTOR
Descriptor:432aa long hypothetical deoxyribodipyrimidine photolyase, FLAVIN-ADENINE DINUCLEOTIDE, (4S)-2-METHYL-2,4-PENTANEDIOL
Authors:Fujihashi, M., Numoto, N., Kobayashi, Y., Mizushima, A., Tsujimura, M., Nakamura, A., Kawarabayashi, Y., Miki, K.
Deposit date:2006-10-10
Release date:2006-11-28
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Crystal Structure of Archaeal Photolyase from Sulfolobus tokodaii with Two FAD Molecules: Implication of a Novel Light-harvesting Cofactor
J.Mol.Biol., 365, 2007
5GMT
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CRYSTAL STRUCTURE OF THE MARINE PL-14 ALGINATE LYASE FROM APLYSIA KURODAI
Descriptor:Alginate lyase
Authors:Qin, H.-M., Miyakawa, T., Nakamura, A., Tanokura, M.
Deposit date:2016-07-16
Release date:2017-01-04
Last modified:2017-02-22
Method:X-RAY DIFFRACTION (1.77 Å)
Cite:Structure and Polymannuronate Specificity of a Eukaryotic Member of Polysaccharide Lyase Family 14.
J. Biol. Chem., 292, 2017