3BNP
 
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3BNT
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3BNN
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3BNS
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3BNR
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3BNO
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3BNL
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3BNQ
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6IYQ
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6JR4
 | | Crystal structure of a NIR-emitting DNA-stabilized Ag16 nanocluster | | Descriptor: | CALCIUM ION, DNA (5'-D(*CP*AP*CP*CP*TP*AP*GP*CP*GP*A)-3'), SILVER ION | | Authors: | Kondo, J, Cerretani, C, Kanazawa, H, Vosch, T. | | Deposit date: | 2019-04-02 | | Release date: | 2019-08-28 | | Last modified: | 2024-03-27 | | Method: | X-RAY DIFFRACTION (1.798 Å) | | Cite: | Crystal structure of a NIR-Emitting DNA-Stabilized Ag16Nanocluster.
Angew.Chem.Int.Ed.Engl., 58, 2019
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7XKM
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7XLW
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7XLV
 | | Crystal structure of a NIR-emitting DNA-stabilized Ag16 nanocluster (G7I mutant) | | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, DNA (5'-D(*CP*AP*CP*CP*TP*AP*IP*CP*GP*A)-3'), SILVER ION | | Authors: | Kondo, J, Cerretani, C, Vosch, T. | | Deposit date: | 2022-04-23 | | Release date: | 2022-07-13 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (1.1 Å) | | Cite: | The effect of inosine on the spectroscopic properties and crystal structure of a NIR-emitting DNA-stabilized silver nanocluster.
Nanoscale Adv, 4, 2022
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7Y8P
 | | Crystal structure of 4'-selenoRNA duplex | | Descriptor: | COBALT HEXAMMINE(III), RNA (5'-R(*GP*GP*AP*(IKS)P*(ILK)P*(IKS)P*GP*AP*GP*UP*CP*C)-3') | | Authors: | Kondo, J, Minakawa, N, Ohta, M, Takahashi, H, Tarashima, N. | | Deposit date: | 2022-06-24 | | Release date: | 2023-05-03 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (1.5 Å) | | Cite: | Synthesis and properties of fully-modified 4'-selenoRNA, an endonuclease-resistant RNA analog.
Bioorg.Med.Chem., 76, 2022
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7YGP
 | | DNA duplex containing 5OHU-T base pairs | | Descriptor: | COBALT (II) ION, COBALT HEXAMMINE(III), DNA (5'-D(*GP*GP*AP*CP*CP*TP*(OHU)P*GP*GP*TP*CP*C)-3') | | Authors: | Kondo, J, Torigoe, H, Arakawa, F. | | Deposit date: | 2022-07-12 | | Release date: | 2023-05-24 | | Last modified: | 2024-05-29 | | Method: | X-RAY DIFFRACTION (1.997 Å) | | Cite: | Specific binding of Hg 2+ to mismatched base pairs involving 5-hydroxyuracil in duplex DNA.
J.Inorg.Biochem., 241, 2023
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7YGO
 | | DNA duplex containing 5OHU-Hg(II)-T base pairs | | Descriptor: | DNA (5'-D(*GP*GP*AP*CP*CP*TP*(6HU)P*GP*GP*TP*CP*C)-3'), MERCURY (II) ION | | Authors: | Kondo, J, Torigoe, H, Arakawa, F. | | Deposit date: | 2022-07-12 | | Release date: | 2023-05-24 | | Last modified: | 2024-05-29 | | Method: | X-RAY DIFFRACTION (2.403 Å) | | Cite: | Specific binding of Hg 2+ to mismatched base pairs involving 5-hydroxyuracil in duplex DNA.
J.Inorg.Biochem., 241, 2023
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7YVX
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5XUV
 | | Crystal structure of DNA duplex containing 4-thiothymine-2Ag(I)-4-thiothymine base pairs | | Descriptor: | DNA (5'-D(*CP*GP*CP*GP*AP*(8RO)P*(8RO)P*TP*CP*GP*CP*G)-3'), POTASSIUM ION, SILVER ION | | Authors: | Kondo, J, Sugawara, T, Saneyoshi, H, Ono, A. | | Deposit date: | 2017-06-26 | | Release date: | 2017-09-20 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Crystal structure of a DNA duplex containing four Ag(i) ions in consecutive dinuclear Ag(i)-mediated base pairs: 4-thiothymine-2Ag(i)-4-thiothymine
Chem. Commun. (Camb.), 53, 2017
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1UHY
 | | Crystal structure of d(GCGATAGC): the base-intercalated duplex | | Descriptor: | 5'-D(*GP*(CBR)P*GP*AP*TP*AP*GP*C)-3', CHLORIDE ION, COBALT HEXAMMINE(III), ... | | Authors: | Kondo, J, Umeda, S.I, Fujita, K, Sunami, T, Takenaka, A. | | Deposit date: | 2003-07-13 | | Release date: | 2004-02-03 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (1.7 Å) | | Cite: | X-ray analyses of d(GCGAXAGC) containing G and T at X: the base-intercalated duplex is still stable even in point mutants at the fifth residue.
J.Synchrotron Radiat., 11, 2004
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1UHX
 | | Crystal structure of d(GCGAGAGC): the base-intercalated duplex | | Descriptor: | 5'-D(*GP*(CBR)P*GP*AP*GP*AP*GP*C)-3', CHLORIDE ION, COBALT HEXAMMINE(III), ... | | Authors: | Kondo, J, Umeda, S.I, Fujita, K, Sunami, T, Takenaka, A. | | Deposit date: | 2003-07-13 | | Release date: | 2004-02-03 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | X-ray analyses of d(GCGAXAGC) containing G and T at X: the base-intercalated duplex is still stable even in point mutants at the fifth residue.
J.Synchrotron Radiat., 11, 2004
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4P3U
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4P3S
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4P3T
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4P43
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4P20
 | | Crystal structures of the bacterial ribosomal decoding site complexed with amikacin | | Descriptor: | (2S)-N-[(1R,2S,3S,4R,5S)-4-[(2R,3R,4S,5S,6R)-6-(aminomethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-5-azanyl-2-[(2S,3R,4S,5S ,6R)-4-azanyl-6-(hydroxymethyl)-3,5-bis(oxidanyl)oxan-2-yl]oxy-3-oxidanyl-cyclohexyl]-4-azanyl-2-oxidanyl-butanamide, 5'-R(*UP*UP*GP*CP*GP*UP*CP*AP*CP*AP*CP*CP*GP*GP*UP*GP*AP*AP*GP*UP*CP*GP*C)-3' | | Authors: | Kondo, J, Francois, B, Russell, R.J.M, Murray, J.B, Westhof, E. | | Deposit date: | 2014-02-28 | | Release date: | 2014-05-07 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (2.7 Å) | | Cite: | Crystal structure of the bacterial ribosomal decoding site complexed with amikacin containing the gamma-amino-alpha-hydroxybutyryl (haba) group.
Biochimie, 88, 2006
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