6IUE
| DNA helical wire containing Hg(II) | Descriptor: | DNA (5'-D(*TP*TP*TP*GP*C)-3'), MERCURY (II) ION | Authors: | Ono, A, Kanazawa, H, Ito, H, Goto, M, Nakamura, K, Saneyoshi, H, Kondo, J. | Deposit date: | 2018-11-28 | Release date: | 2019-10-16 | Last modified: | 2024-03-27 | Method: | X-RAY DIFFRACTION (1.901 Å) | Cite: | A Novel DNA Helical Wire Containing HgII-Mediated T:T and T:G Pairs. Angew.Chem.Int.Ed.Engl., 58, 2019
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3AGU
| Hemerythrin-like domain of DcrH (semimet-R) | Descriptor: | CHLORO DIIRON-OXO MOIETY, Hemerythrin-like domain protein DcrH | Authors: | Onoda, A, Okamoto, Y, Sugimoto, H, Mizohata, E, Inoue, T, Shiro, Y, Hayashi, T. | Deposit date: | 2010-04-06 | Release date: | 2011-04-06 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (1.805 Å) | Cite: | Characteristics of Diiron Site with Large Cavity in Hemerythrin-like Domain of DcrH to be published
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3AGT
| Hemerythrin-like domain of DcrH (met) | Descriptor: | CHLORO DIIRON-OXO MOIETY, Hemerythrin-like domain protein DcrH | Authors: | Onoda, A, Okamoto, Y, Sugimoto, H, Mizohata, E, Inoue, T, Shiro, Y, Hayashi, T. | Deposit date: | 2010-04-06 | Release date: | 2011-04-06 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (1.4 Å) | Cite: | Characteristics of Diiron Site with Large Cavity in Hemerythrin-like Domain of DcrH to be published
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6IYQ
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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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5AY4
| Crystal structure of RNA duplex containing C-C base pairs obtained in the presence of Hg(II) | Descriptor: | RNA (5'-R(*GP*GP*AP*CP*UP*(CBR)P*GP*AP*CP*UP*CP*C)-3'), SODIUM ION | Authors: | Kondo, J, Tada, Y, Dairaku, T, Saneyoshi, H, Okamoto, I, Tanaka, Y, Ono, A. | Deposit date: | 2015-08-06 | Release date: | 2015-10-21 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.7 Å) | Cite: | High-Resolution Crystal Structure of a Silver(I)-RNA Hybrid Duplex Containing Watson-Crick-like CSilver(I)C Metallo-Base Pairs Angew.Chem.Int.Ed.Engl., 54, 2015
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5AY2
| Crystal structure of RNA duplex containing C-Ag(I)-C base pairs | Descriptor: | RNA (5'-R(*GP*GP*AP*CP*UP*(CBR)P*GP*AP*CP*UP*CP*C)-3'), SILVER ION | Authors: | Kondo, J, Tada, Y, Dairaku, T, Saneyoshi, H, Okamoto, I, Tanaka, Y, Ono, A. | Deposit date: | 2015-08-06 | Release date: | 2015-10-21 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (1.3 Å) | Cite: | High-Resolution Crystal Structure of a Silver(I)-RNA Hybrid Duplex Containing Watson-Crick-like CSilver(I)C Metallo-Base Pairs Angew.Chem.Int.Ed.Engl., 54, 2015
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5AY3
| Crystal structure of RNA duplex containing C-C base pairs | Descriptor: | RNA (5'-R(*GP*GP*AP*CP*UP*(CBR)P*GP*A*CP*UP*CP*C)-3') | Authors: | Kondo, J, Tada, Y, Dairaku, T, Saneyoshi, H, Okamoto, I, Tanaka, Y, Ono, A. | Deposit date: | 2015-08-06 | Release date: | 2015-10-21 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (1.2 Å) | Cite: | High-Resolution Crystal Structure of a Silver(I)-RNA Hybrid Duplex Containing Watson-Crick-like CSilver(I)C Metallo-Base Pairs Angew.Chem.Int.Ed.Engl., 54, 2015
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5IX7
| Crystal structure of metallo-DNA nanowire with infinite one-dimensional silver array | Descriptor: | DNA (5'-D(*GP*GP*AP*CP*TP*(CBR)P*GP*AP*CP*TP*CP*C)-3'), POTASSIUM ION, SILVER ION | Authors: | Kondo, J, Tada, Y, Dairaku, T, Hattori, Y, Saneyoshi, H, Ono, A, Tanaka, Y. | Deposit date: | 2016-03-23 | Release date: | 2017-07-05 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (1.398 Å) | Cite: | A metallo-DNA nanowire with uninterrupted one-dimensional silver array Nat Chem, 9, 2017
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7EAY
| DNA containing Cu(II)-mediated 4-N-carboxymethylcytosine base pairs | Descriptor: | COBALT (II) ION, COBALT HEXAMMINE(III), COPPER (II) ION, ... | Authors: | Kondo, J, Terashima, A, Yoshimura, A, Tada, Y, Ono, A. | Deposit date: | 2021-03-08 | Release date: | 2022-03-09 | Last modified: | 2024-05-29 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | DNA containing Cu(II)-mediated 4-N-carboxymethylcytosine base pairs To Be Published
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7C0E
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1VE8
| X-Ray analyses of oligonucleotides containing 5-formylcytosine, suggesting a structural reason for codon-anticodon recognition of mitochondrial tRNA-Met; Part 1, d(CGCGAATT(f5C)GCG) | Descriptor: | 5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*(5FC)P*GP*CP*G)-3', SODIUM ION | Authors: | Kimura, K, Ono, A, Watanabe, K, Takenaka, A. | Deposit date: | 2004-03-29 | Release date: | 2005-06-28 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (1.65 Å) | Cite: | X-Ray analyses of oligonucleotides containing 5-formylcytosine, suggest a structural reason for the codon-anticodon recognition of mitochondrial tRNA-Met To be Published
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7XKM
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456D
| MOLECULAR AND CRYSTAL STRUCTURE OF D(CGCGMO6AATCCGCG): THE WATSON-CRICK TYPE N6-METHOXYADENOSINE/CYTIDINE BASE-PAIRS IN B-DNA | Descriptor: | DNA (5'-D(*CP*GP*CP*GP*(A47)P*AP*TP*CP*CP*GP*CP*G)-3'), MAGNESIUM ION | Authors: | Chatake, T, Ono, A, Ueno, Y, Matsuda, A, Takenaka, A. | Deposit date: | 1999-03-06 | Release date: | 2000-01-01 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | Crystallographic studies on damaged DNAs. I. An N(6)-methoxyadenine residue forms a Watson-Crick pair with a cytosine residue in a B-DNA duplex. J.Mol.Biol., 294, 1999
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457D
| MOLECULAR AND CRYSTAL STRUCTURE OF D(CGCGMO6AATTCGCG): N6-METHOXYADENOSINE/ THYMIDINE BASE-PAIRS IN B-DNA | Descriptor: | DNA (5'-D(*CP*GP*CP*GP*(A47)P*AP*TP*TP*CP*GP*CP*G)-3'), MAGNESIUM ION | Authors: | Chatake, T, Ono, A, Ueno, Y, Matsuda, A, Takenaka, A. | Deposit date: | 1999-03-06 | Release date: | 2000-01-01 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Crystallographic studies on damaged DNAs. II. N(6)-methoxyadenine can present two alternate faces for Watson-Crick base-pairing, leading to pyrimidine transition mutagenesis. J.Mol.Biol., 294, 1999
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7NQZ
| Plasmodium falciparum Hsp70-x chaperone nucleotide binding domain in complex with Z1827898537 | Descriptor: | (3S)-N-benzylpyrrolidin-3-amine, AMP PHOSPHORAMIDATE, CHLORIDE ION, ... | Authors: | Mohamad, N, O'Donoghue, A, Kantsadi, A.L, Vakonakis, I. | Deposit date: | 2021-03-02 | Release date: | 2021-03-10 | Last modified: | 2024-01-31 | Method: | X-RAY DIFFRACTION (2.319 Å) | Cite: | Structures of P. falciparum Hsp70-x nucleotide binding domain with small molecule ligands To Be Published
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7NQR
| Plasmodium falciparum Hsp70-x chaperone nucleotide binding domain in complex with Z287256168 | Descriptor: | (S)-N-(1-cyclopropylethyl)-6-methylpicolinamide, 1-(2-METHOXY-ETHOXY)-2-{2-[2-(2-METHOXY-ETHOXY]-ETHOXY}-ETHANE, AMP PHOSPHORAMIDATE, ... | Authors: | Mohamad, N, O'Donoghue, A, Kantsadi, A.L, Vakonakis, I. | Deposit date: | 2021-03-02 | Release date: | 2021-03-10 | Last modified: | 2024-01-31 | Method: | X-RAY DIFFRACTION (2.22 Å) | Cite: | Structures of P. falciparum Hsp70-x nucleotide binding domain with small molecule ligands To Be Published
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7NQU
| Plasmodium falciparum Hsp70-x chaperone nucleotide binding domain in complex with Z396380540 | Descriptor: | AMP PHOSPHORAMIDATE, CHLORIDE ION, GLYCEROL, ... | Authors: | Mohamad, N, O'Donoghue, A, Kantsadi, A.L, Vakonakis, I. | Deposit date: | 2021-03-02 | Release date: | 2021-03-10 | Last modified: | 2024-01-31 | Method: | X-RAY DIFFRACTION (2.13 Å) | Cite: | Structures of P. falciparum Hsp70-x nucleotide binding domain with small molecule ligands To Be Published
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7NQS
| Plasmodium falciparum Hsp70-x chaperone nucleotide binding domain in complex with Z1203107138 | Descriptor: | 1-ethyl-N-[(4-fluorophenyl)methyl]-1H-pyrazole-4-carboxamide, AMP PHOSPHORAMIDATE, GLYCEROL, ... | Authors: | Mohamad, N, O'Donoghue, A, Kantsadi, A.L, Vakonakis, I. | Deposit date: | 2021-03-02 | Release date: | 2021-03-17 | Last modified: | 2024-01-31 | Method: | X-RAY DIFFRACTION (2.56 Å) | Cite: | Structures of P. falciparum Hsp70-x nucleotide binding domain with small molecule ligands To Be Published
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1EDR
| MOLECULAR AND CRYSTAL STRUCTURE OF D(CGCGMO6AATTCGCG) AT 1.6 ANGSTROM | Descriptor: | 5'-D(*CP*GP*CP*GP*(A47)AP*AP*TP*TP*CP*GP*CP*G)-3', MAGNESIUM ION, SPERMINE | Authors: | Chatake, T, Hikima, T, Ono, A, Ueno, Y, Matsuda, A, Takenaka, A. | Deposit date: | 2000-01-28 | Release date: | 2000-02-16 | Last modified: | 2024-02-07 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | Crystallographic studies on damaged DNAs. II. N(6)-methoxyadenine can present two alternate faces for Watson-Crick base-pairing, leading to pyrimidine transition mutagenesis. J.Mol.Biol., 294, 1999
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1DUF
| THE NMR STRUCTURE OF DNA DODECAMER DETERMINED IN AQUEOUS DILUTE LIQUID CRYSTALLINE PHASE | Descriptor: | DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3') | Authors: | Tjandra, N, Tate, S, Ono, A, Kainosho, M, Bax, A. | Deposit date: | 2000-01-17 | Release date: | 2000-07-14 | Last modified: | 2024-05-22 | Method: | SOLUTION NMR | Cite: | The NMR Structure of a DNA Dodecamer in an Aqueous Dilute Liquid Crystalline Phase J.Am.Chem.Soc., 122, 2000
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4L24
| Crystal structure of metallo-DNA duplex containing consecutive T-Hg(II)-T base pairs | Descriptor: | DNA (5'-D(*CP*GP*CP*GP*AP*TP*TP*TP*CP*GP*CP*G)-3'), MERCURY (II) ION | Authors: | Kondo, J, Yamada, T, Hirose, C, Okamoto, I, Tanaka, Y, Ono, A. | Deposit date: | 2013-06-04 | Release date: | 2014-03-05 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.7 Å) | Cite: | Crystal Structure of Metallo DNA Duplex Containing Consecutive Watson-Crick-like T-Hg(II) -T Base Pairs Angew.Chem.Int.Ed.Engl., 53, 2014
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4L26
| Crystal structure of DNA duplex containing consecutive T-T mispairs (Br-derivative) | Descriptor: | DNA (5'-D(*CP*GP*(CBR)P*GP*AP*TP*TP*TP*CP*GP*CP*G)-3') | Authors: | Kondo, J, Yamada, T, Hirose, C, Tanaka, Y, Ono, A. | Deposit date: | 2013-06-04 | Release date: | 2014-03-05 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (1.4 Å) | Cite: | Crystal Structure of Metallo DNA Duplex Containing Consecutive Watson-Crick-like T-Hg(II) -T Base Pairs Angew.Chem.Int.Ed.Engl., 53, 2014
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4L25
| Crystal structure of DNA duplex containing consecutive T-T mispairs | Descriptor: | DNA (5'-D(*CP*GP*CP*GP*AP*TP*TP*TP*CP*GP*CP*G)-3') | Authors: | Kondo, J, Yamada, T, Hirose, C, Tanaka, Y, Ono, A. | Deposit date: | 2013-06-04 | Release date: | 2014-03-05 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.1 Å) | Cite: | Crystal Structure of Metallo DNA Duplex Containing Consecutive Watson-Crick-like T-Hg(II) -T Base Pairs Angew.Chem.Int.Ed.Engl., 53, 2014
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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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