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PDB: 1490 results

7KIJ
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Muscovy duck circovirus Rep domain complexed with a single-stranded DNA 10-mer comprising the cleavage site
Descriptor: ATP-dependent helicase Rep, DNA (5'-D(*TP*AP*TP*TP*AP*TP*TP*AP*CP*C)-3'), GLYCEROL, ...
Authors:Tompkins, K.J, Gordon, W.R, Shi, K.
Deposit date:2020-10-23
Release date:2021-11-17
Last modified:2024-06-19
Method:X-RAY DIFFRACTION (1.69 Å)
Cite:Watson-Crick Base-Pairing Requirements for ssDNA Recognition and Processing in Replication-Initiating HUH Endonucleases.
Mbio, 14, 2023
7KM6
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BU of 7km6 by Molmil
APOBEC3B antibody 5G7 Fv-clasp
Descriptor: 1,2-ETHANEDIOL, 5G7 human monoclonal FAB heavy chain, 5G7 human monoclonal FAB light chain, ...
Authors:Tang, H, Shi, K, Aihara, H.
Deposit date:2020-11-02
Release date:2021-05-12
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (1.67 Å)
Cite:Structural Characterization of a Minimal Antibody against Human APOBEC3B.
Viruses, 13, 2021
7M8R
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Complex structure of Methane monooxygenase hydroxylase and regulatory subunit with fluorosubstituted tryptophans
Descriptor: 1,1,1-tris(fluoranyl)propan-2-one, 1,2-ETHANEDIOL, BENZOIC ACID, ...
Authors:Johns, J.C, Banerjee, R, Shi, K, Semonis, M.M, Aihara, H, Pomerantz, W.C.K, Lipscomb, J.D.
Deposit date:2021-03-30
Release date:2021-07-28
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (2.22 Å)
Cite:Soluble Methane Monooxygenase Component Interactions Monitored by 19 F NMR.
Biochemistry, 60, 2021
7M8Q
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Complex structure of Methane monooxygenase hydroxylase and regulatory subunit with fluorosubstituted tryptophans
Descriptor: 1,2-ETHANEDIOL, BENZOIC ACID, FE (III) ION, ...
Authors:Johns, J.C, Banerjee, R, Shi, K, Semonis, M.M, Aihara, H, Pomerantz, W.C.K, Lipscomb, J.D.
Deposit date:2021-03-30
Release date:2021-07-28
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (2.08 Å)
Cite:Soluble Methane Monooxygenase Component Interactions Monitored by 19 F NMR.
Biochemistry, 60, 2021
7KII
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Muscovy duck circovirus Rep domain complexed with a single-stranded DNA 10-mer comprising the cleavage site and Mn2+
Descriptor: ATP-dependent helicase Rep, CALCIUM ION, DNA (5'-D(*TP*AP*TP*TP*AP*TP*TP*AP*CP*C)-3'), ...
Authors:Tompkins, K.J, Gordon, W.R, Shi, K.
Deposit date:2020-10-23
Release date:2021-11-17
Last modified:2024-06-19
Method:X-RAY DIFFRACTION (1.3 Å)
Cite:Watson-Crick Base-Pairing Requirements for ssDNA Recognition and Processing in Replication-Initiating HUH Endonucleases.
Mbio, 14, 2023
7KIK
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Wheat dwarf virus Rep domain circular permutation complexed with a single-stranded DNA 10-mer comprising the cleavage site and Mn2+
Descriptor: DNA (5'-D(*TP*AP*AP*TP*AP*TP*TP*AP*CP*C)-3'), MANGANESE (II) ION, Replication-associated protein
Authors:Tompkins, K.J, Gordon, W.R, Shi, K, Litzau, L.A.
Deposit date:2020-10-23
Release date:2021-11-17
Last modified:2024-06-19
Method:X-RAY DIFFRACTION (1.73 Å)
Cite:Watson-Crick Base-Pairing Requirements for ssDNA Recognition and Processing in Replication-Initiating HUH Endonucleases.
Mbio, 14, 2023
7MLR
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BU of 7mlr by Molmil
X-ray crystal structure of human BRD4(D1) in complex with 2-(4-{5-[6-(3,5-dimethylphenoxy)pyridin-2-yl]-4-methyl-1H-1,2,3-triazol-1- yl}piperidin-1-yl)-N,N-dimethylethan-1-amine (DW34)
Descriptor: 1,2-ETHANEDIOL, 2-(4-{5-[6-(3,5-dimethylphenoxy)pyridin-2-yl]-4-methyl-1H-1,2,3-triazol-1-yl}piperidin-1-yl)-N,N-dimethylethan-1-amine, Bromodomain-containing protein 4, ...
Authors:Cui, H, Shi, K, Aihara, H, Pomerantz, W.C.K.
Deposit date:2021-04-28
Release date:2021-07-28
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (1.2 Å)
Cite:4-Methyl-1,2,3-Triazoles as N -Acetyl-Lysine Mimics Afford Potent BET Bromodomain Inhibitors with Improved Selectivity.
J.Med.Chem., 64, 2021
7MLQ
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X-ray crystal structure of human BRD4(D1) in complex with 2-(4-{5-[6-(2,5-dibromophenoxy)pyridin-2-yl]-4-methyl-1H-1,2,3-triazol-1-yl}piperidin-1-yl)-N,N-dimethylethan-1-amine (compound 26)
Descriptor: 1,2-ETHANEDIOL, 2-(4-{5-[6-(2,5-dibromophenoxy)pyridin-2-yl]-4-methyl-1H-1,2,3-triazol-1-yl}piperidin-1-yl)-N,N-dimethylethan-1-amine, Bromodomain-containing protein 4, ...
Authors:Cui, H, Johnson, J.A, Vail, N.R, Shi, K, Aihara, H, Pomerantz, W.C.K.
Deposit date:2021-04-28
Release date:2021-07-28
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (1.32 Å)
Cite:4-Methyl-1,2,3-Triazoles as N -Acetyl-Lysine Mimics Afford Potent BET Bromodomain Inhibitors with Improved Selectivity.
J.Med.Chem., 64, 2021
7MLS
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BU of 7mls by Molmil
X-ray crystal structure of human BRD4(D1) in complex with 2-(2,5-dibromophenoxy)-6-[4-methyl-1-(piperidin-4-yl)-1H-1,2,3-triazol-5-yl]pyridine (compound 23)
Descriptor: 1,2-ETHANEDIOL, 2-(2,5-dibromophenoxy)-6-[4-methyl-1-(piperidin-4-yl)-1H-1,2,3-triazol-5-yl]pyridine, Bromodomain-containing protein 4, ...
Authors:Cui, H, Johnson, J.A, Zahid, H, Buchholz, C.R, Shi, K, Aihara, H, Pomerantz, W.C.K.
Deposit date:2021-04-28
Release date:2021-07-28
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (1.26 Å)
Cite:4-Methyl-1,2,3-Triazoles as N -Acetyl-Lysine Mimics Afford Potent BET Bromodomain Inhibitors with Improved Selectivity.
J.Med.Chem., 64, 2021
2IP2
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BU of 2ip2 by Molmil
Structure of the Pyocyanin Biosynthetic Protein PhzM
Descriptor: Probable phenazine-specific methyltransferase
Authors:Ladner, J.E, Parsons, J.F, Robinson, H, Shi, K.
Deposit date:2006-10-11
Release date:2006-10-24
Last modified:2024-02-21
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Structural and functional analysis of the pyocyanin biosynthetic protein PhzM from Pseudomonas aeruginosa.
Biochemistry, 46, 2007
6CH3
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BU of 6ch3 by Molmil
Crystal structure of the cytoplasmic domain of FlhA and FliS-FliC complex
Descriptor: Flagellar biosynthesis protein FlhA, Flagellar secretion chaperone FliS,Flagellin
Authors:Xing, Q, Shi, K, Kalodimos, C.G.
Deposit date:2018-02-21
Release date:2018-05-16
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.68 Å)
Cite:Structures of chaperone-substrate complexes docked onto the export gate in a type III secretion system.
Nat Commun, 9, 2018
7KM5
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BU of 7km5 by Molmil
Crystal structure of SARS-CoV-2 RBD complexed with Nanosota-1
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, CHLORIDE ION, Spike protein S1, ...
Authors:Ye, G, Shi, K, Aihara, H, Li, F.
Deposit date:2020-11-02
Release date:2021-08-04
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (3.19 Å)
Cite:The development of Nanosota - 1 as anti-SARS-CoV-2 nanobody drug candidates.
Elife, 10, 2021
1FUF
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BU of 1fuf by Molmil
CRYSTAL STRUCTURE OF A 14BP RNA OLIGONUCLEOTIDE CONTAINING DOUBLE UU BULGES: A NOVEL INTRAMOLECULAR U*(AU) BASE TRIPLE
Descriptor: (5'-R(*GP*GP*UP*AP*UP*UP*UP*CP*GP*GP*UP*AP*(CBR)P*C)-3'), MAGNESIUM ION, SPERMINE
Authors:Deng, J, Xiong, Y, Sudarsanakumar, C, Shi, K, Sundaralingam, M.
Deposit date:2000-09-15
Release date:2001-11-09
Last modified:2024-02-07
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Crystal structures of two forms of a 14-mer RNA/DNA chimer duplex with double UU bulges: a novel intramolecular U*(A x U) base triple.
RNA, 7, 2001
1J6S
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BU of 1j6s by Molmil
Crystal Structure of an RNA Tetraplex (UGAGGU)4 with A-tetrads, G-tetrads, U-tetrads and G-U octads
Descriptor: 5'-R(*(BRUP*GP*AP*GP*GP*U)-3', BARIUM ION, SODIUM ION
Authors:Pan, B, Xiong, Y, Shi, K, Deng, J, Sundaralingam, M.
Deposit date:2002-07-10
Release date:2003-08-05
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (1.4 Å)
Cite:Crystal structure of an RNA purine-rich tetraplex containing adenine tetrads: implications for specific binding in RNA tetraplexes
Structure, 11, 2003
8SNI
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BU of 8sni by Molmil
Hydroxynitrile Lyase from Hevea brasiliensis with Forty Mutations
Descriptor: (S)-hydroxynitrile lyase, 1,2-ETHANEDIOL, BENZOIC ACID, ...
Authors:Walsh, M.E, Greenberg, L.R, Kazlauskas, R.J, Pierce, C.T, Aihara, H, Evans, R.L, Shi, K.
Deposit date:2023-04-27
Release date:2024-02-28
Method:X-RAY DIFFRACTION (1.99 Å)
Cite:To be published
To Be Published
1IK5
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BU of 1ik5 by Molmil
Crystal Structure of a 14mer RNA Containing Double UU Bulges in Two Crystal Forms: A Novel U*(AU) Intramolecular Base Triple
Descriptor: 5'-R(*GP*GP*UP*AP*UP*UP*UP*CP*GP*GP*UP*AP*(CBR)P*C)-3', 5'-R(*GP*GP*UP*AP*UP*UP*UP*UP*GP*GP*UP*AP*(CBR)P*C)-3', MAGNESIUM ION
Authors:Deng, J, Xiong, Y, Sudarsanakumar, C, Shi, K, Sundaralingam, M.
Deposit date:2001-05-02
Release date:2001-11-09
Last modified:2024-02-07
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Crystal structures of two forms of a 14-mer RNA/DNA chimer duplex with double UU bulges: a novel intramolecular U*(A x U) base triple.
RNA, 7, 2001
5WLY
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BU of 5wly by Molmil
E. coli LpxH- 8 mutations
Descriptor: 1,2-ETHANEDIOL, CHLORIDE ION, FORMIC ACID, ...
Authors:Bohl, T.E, Aihara, H, Shi, K, Lee, J.K.
Deposit date:2017-07-28
Release date:2018-04-11
Last modified:2023-10-04
Method:X-RAY DIFFRACTION (2 Å)
Cite:The substrate-binding cap of the UDP-diacylglucosamine pyrophosphatase LpxH is highly flexible, enabling facile substrate binding and product release.
J. Biol. Chem., 293, 2018
1VDY
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BU of 1vdy by Molmil
NMR Structure of the hypothetical ENTH-VHS domain At3g16270 from Arabidopsis thaliana
Descriptor: hypothetical protein (RAFL09-17-B18)
Authors:Lopez-Mendez, B, Pantoja-Uceda, D, Tomizawa, T, Koshiba, S, Kigawa, T, Shirouzu, M, Terada, T, Inoue, M, Yabuki, T, Aoki, M, Seki, E, Matsuda, T, Hirota, H, Yoshida, M, Tanaka, A, Osanai, T, Seki, M, Shinozaki, K, Yokoyama, S, Guntert, P, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2004-03-25
Release date:2005-05-03
Last modified:2023-12-27
Method:SOLUTION NMR
Cite:Solution structure of the hypothetical ENTH-VHS domain AT3G16270 from arabidopsis thaliana
To be Published
7C86
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BU of 7c86 by Molmil
Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin: Dark state 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, RETINAL, ...
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:2020-05-28
Release date:2021-04-07
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin.
Elife, 10, 2021
5W8S
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BU of 5w8s by Molmil
Lipid A Disaccharide Synthase (LpxB)-7 solubilizing mutations
Descriptor: LITHIUM ION, Lipid-A-disaccharide synthase, SODIUM ION
Authors:Bohl, T.E, Aihara, H, Shi, K, Lee, J.K.
Deposit date:2017-06-22
Release date:2018-01-31
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Crystal structure of lipid A disaccharide synthase LpxB from Escherichia coli.
Nat Commun, 9, 2018
5W8N
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BU of 5w8n by Molmil
Lipid A Disaccharide Synthase (LpxB)-6 solubilizing mutations
Descriptor: Lipid-A-disaccharide synthase
Authors:Bohl, T.E, Aihara, H, Shi, K, Lee, J.K.
Deposit date:2017-06-22
Release date:2018-01-31
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.02 Å)
Cite:Crystal structure of lipid A disaccharide synthase LpxB from Escherichia coli.
Nat Commun, 9, 2018
5W8X
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BU of 5w8x by Molmil
Lipid A Disaccharide Synthase (LpxB)-7 solubilizing mutations-Bound to UDP
Descriptor: Lipid-A-disaccharide synthase, URIDINE-5'-DIPHOSPHATE
Authors:Bohl, T.E, Aihara, H, Shi, K, Lee, J.K.
Deposit date:2017-06-22
Release date:2018-01-31
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (1.98 Å)
Cite:Crystal structure of lipid A disaccharide synthase LpxB from Escherichia coli.
Nat Commun, 9, 2018
8JRD
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BU of 8jrd by Molmil
Chalcone synthase from Glycine max (L.) Merr (soybean) complexed with naringenin and coenzyme A
Descriptor: 1,2-ETHANEDIOL, COENZYME A, DI(HYDROXYETHYL)ETHER, ...
Authors:Waki, T, Imaizumi, R, Nakata, S, Yanai, T, Takeshita, K, Sakai, N, Kataoka, K, Yamamoto, M, Nakayama, T, Yamashita, S.
Deposit date:2023-06-16
Release date:2024-06-19
Last modified:2024-07-17
Method:X-RAY DIFFRACTION (1.83 Å)
Cite:Structural insights into catalytic promiscuity of chalcone synthase from Glycine max (L.) Merr.: Coenzyme A-induced alteration of product specificity.
Biochem.Biophys.Res.Commun., 718, 2024
5H6L
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BU of 5h6l by Molmil
DNA targeting ADP-ribosyltransferase Pierisin-1 in complex with beta-NAD+
Descriptor: 1,2-ETHANEDIOL, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, Pierisin-1
Authors:Oda, T, Hirabayashi, H, Shikauchi, G, Takamura, R, Hiraga, K, Minami, H, Hashimoto, H, Yamamoto, M, Wakabayashi, K, Sugimura, T, Shimizu, T, Sato, M.
Deposit date:2016-11-14
Release date:2017-08-09
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Structural basis of autoinhibition and activation of the DNA-targeting ADP-ribosyltransferase pierisin-1
J. Biol. Chem., 292, 2017
5H6M
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BU of 5h6m by Molmil
DNA targeting ADP-ribosyltransferase Pierisin-1
Descriptor: 1,2-ETHANEDIOL, Pierisin-1
Authors:Oda, T, Hirabayashi, H, Shikauchi, G, Takamura, R, Hiraga, K, Minami, H, Hashimoto, H, Yamamoto, M, Wakabayashi, K, Sugimura, T, Shimizu, T, Sato, M.
Deposit date:2016-11-14
Release date:2017-08-09
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Structural basis of autoinhibition and activation of the DNA-targeting ADP-ribosyltransferase pierisin-1
J. Biol. Chem., 292, 2017

224004

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