2D3U
| X-ray crystal structure of hepatitis C virus RNA dependent RNA polymerase in complex with non-nucleoside analogue inhibitor | Descriptor: | 5-(4-CYANOPHENYL)-3-{[(2-METHYLPHENYL)SULFONYL]AMINO}THIOPHENE-2-CARBOXYLIC ACID, polyprotein | Authors: | Biswal, B.K, Wang, M, Cherney, M.M, Chan, L, Yannopoulos, C.G, Bilimoria, D, Bedard, J, James, M.N.G. | Deposit date: | 2005-10-02 | Release date: | 2006-08-01 | Last modified: | 2017-10-11 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Non-nucleoside Inhibitors Binding to Hepatitis C Virus NS5B Polymerase Reveal a Novel Mechanism of Inhibition J.Mol.Biol., 361, 2006
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2MGW
| Solution Structure of the UBA Domain of Human NBR1 | Descriptor: | Next to BRCA1 gene 1 protein | Authors: | Walinda, E, Morimoto, D, Sugase, K, Komatsu, M, Tochio, H, Shirakawa, M. | Deposit date: | 2013-11-09 | Release date: | 2014-04-09 | Last modified: | 2024-05-15 | Method: | SOLUTION NMR | Cite: | Solution structure of the ubiquitin-associated (UBA) domain of human autophagy receptor NBR1 and its interaction with ubiquitin and polyubiquitin. J.Biol.Chem., 289, 2014
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2MJ5
| Structure of the UBA Domain of Human NBR1 in Complex with Ubiquitin | Descriptor: | Next to BRCA1 gene 1 protein, Polyubiquitin-C | Authors: | Walinda, E, Morimoto, D, Sugase, K, Komatsu, M, Tochio, H, Shirakawa, M. | Deposit date: | 2013-12-25 | Release date: | 2014-04-09 | Last modified: | 2024-05-15 | Method: | SOLUTION NMR | Cite: | Solution structure of the ubiquitin-associated (UBA) domain of human autophagy receptor NBR1 and its interaction with ubiquitin and polyubiquitin. J.Biol.Chem., 289, 2014
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2D41
| X-ray crystal structure of hepatitis C virus RNA-dependent RNA polymerase in complex with non-nucleoside inhibitor | Descriptor: | 5'-ACETYL-4-{[(2,4-DIMETHYLPHENYL)SULFONYL]AMINO}-2,2'-BITHIOPHENE-5-CARBOXYLIC ACID, polyprotein | Authors: | Biswal, B.K, Wang, M, Cherney, M.M, Chan, L, Yannopoulos, C.G, Bilimoria, D, Bedard, J, James, M.N.G. | Deposit date: | 2005-10-05 | Release date: | 2006-08-01 | Last modified: | 2011-07-13 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Non-nucleoside Inhibitors Binding to Hepatitis C Virus NS5B Polymerase Reveal a Novel Mechanism of Inhibition J.Mol.Biol., 361, 2006
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2D3Z
| X-ray crystal structure of hepatitis C virus RNA-dependent RNA polymerase in complex with non-nucleoside analogue inhibitor | Descriptor: | 5-(4-FLUOROPHENYL)-3-{[(4-METHYLPHENYL)SULFONYL]AMINO}THIOPHENE-2-CARBOXYLIC ACID, polyprotein | Authors: | Biswal, B.K, Wang, M, Cherney, M.M, Chan, L, Yannopoulos, C.G, Bilimoria, D, Bedard, J, James, M.N.G. | Deposit date: | 2005-10-04 | Release date: | 2006-08-01 | Last modified: | 2011-07-13 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Non-nucleoside Inhibitors Binding to Hepatitis C Virus NS5B Polymerase Reveal a Novel Mechanism of Inhibition J.Mol.Biol., 361, 2006
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1WTF
| Crystal structure of Bacillus thermoproteolyticus Ferredoxin Variants Containing Unexpected [3Fe-4S] Cluster that is linked to Coenzyme A at 1.6 A Resolution | Descriptor: | COENZYME A, FE3-S4 CLUSTER, Ferredoxin, ... | Authors: | Shirakawa, T, Takahashi, Y, Wada, K, Hirota, J, Takao, T, Ohmori, D, Fukuyama, K. | Deposit date: | 2004-11-22 | Release date: | 2005-11-08 | Last modified: | 2011-07-13 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | Identification of variant molecules of Bacillus thermoproteolyticus ferredoxin: crystal structure reveals bound coenzyme A and an unexpected [3Fe-4S] cluster associated with a canonical [4Fe-4S] ligand motif Biochemistry, 44, 2005
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1YV2
| Hepatitis C virus NS5B RNA-dependent RNA Polymerase genotype 2a | Descriptor: | GLYCEROL, RNA dependent RNA polymerase, SULFATE ION | Authors: | Biswal, B.K, Cherney, M.M, Wang, M, Chan, L, Yannopoulos, C.G, Bilimoria, D, Nicolas, O, Bedard, J, James, M.N.G. | Deposit date: | 2005-02-14 | Release date: | 2005-03-22 | Last modified: | 2011-07-13 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Crystal Structures of the RNA-dependent RNA Polymerase Genotype 2a of Hepatitis C Virus Reveal Two Conformations and Suggest Mechanisms of Inhibition by Non-nucleoside Inhibitors J.Biol.Chem., 280, 2005
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1YVZ
| Hepatitis C Virus RNA Polymerase Genotype 2a In Complex With Non- Nucleoside Analogue Inhibitor | Descriptor: | 3-[(2,4-DICHLOROBENZOYL)(ISOPROPYL)AMINO]-5-PHENYLTHIOPHENE-2-CARBOXYLIC ACID, RNA dependent RNA polymerase, SULFATE ION | Authors: | Biswal, B.K, Cherney, M.M, Wang, M, Chan, L, Yannopoulos, C.G, Bilimoria, D, Nicolas, O, Bedard, J, James, M.N.G. | Deposit date: | 2005-02-16 | Release date: | 2005-03-22 | Last modified: | 2017-10-11 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | Crystal structures of the RNA dependent RNA polymerase genotype 2a of hepatitis C virus reveal two conformations and suggest mechanisms of inhibition by non-nucleoside inhibitors. J.Biol.Chem., 280, 2005
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1YUY
| HEPATITIS C VIRUS NS5B RNA-DEPENDENT RNA POLYMERASE GENOTYPE 2a | Descriptor: | RNA-Dependent RNA polymerase, SULFATE ION | Authors: | Biswal, B.K, Cherney, M.M, Wang, M, Chan, L, Yannopoulos, C.G, Bilimoria, D, Nicolas, O, Bedard, J, James, M.N.G. | Deposit date: | 2005-02-14 | Release date: | 2005-03-22 | Last modified: | 2024-02-14 | Method: | X-RAY DIFFRACTION (1.9 Å) | Cite: | Crystal structures of the RNA dependent RNA polymerase genotype 2a of hepatitis C virus reveal two conformations and suggest mechanisms of inhibition by non-nucleoside inhibitors. J.Biol.Chem., 280, 2005
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1YVX
| Hepatitis C Virus RNA Polymerase Genotype 2a In Complex With Non- Nucleoside Analogue Inhibitor | Descriptor: | 3-[ISOPROPYL(4-METHYLBENZOYL)AMINO]-5-PHENYLTHIOPHENE-2-CARBOXYLIC ACID, RNA dependent RNA polymerase, SULFATE ION | Authors: | Biswal, B.K, Cherney, M.M, Wang, M, Chan, L, Yannopoulos, C.G, Bilimoria, D, Nicolas, O, Bedard, J, James, M.N.G. | Deposit date: | 2005-02-16 | Release date: | 2005-03-22 | Last modified: | 2011-07-13 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Crystal structures of the RNA dependent RNA polymerase genotype 2a of hepatitis C virus reveal two conformations and suggest mechanisms of inhibition by non-nucleoside inhibitors. J.Biol.Chem., 280, 2005
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1UER
| Crystal structure of Porphyromonas gingivalis SOD | Descriptor: | FE (III) ION, superoxide dismutase | Authors: | Yamakura, F, Sugio, S, Hiraoka, B.Y, Yokota, T, Ohmori, D. | Deposit date: | 2003-05-20 | Release date: | 2004-05-20 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | Pronounced conversion of the metal-specific activity of superoxide dismutase from Porphyromonas gingivalis by the mutation of a single amino acid (Gly155Thr) located apart from the active site Biochemistry, 42, 2003
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1R2A
| THE MOLECULAR BASIS FOR PROTEIN KINASE A ANCHORING REVEALED BY SOLUTION NMR | Descriptor: | PROTEIN (CAMP-DEPENDENT PROTEIN KINASE TYPE II REGULATORY SUBUNIT) | Authors: | Newlon, M.G, Roy, M, Morikis, D, Hausken, Z.E, Coghlan, V, Scott, J.D, Jennings, P.A. | Deposit date: | 1998-12-07 | Release date: | 1998-12-16 | Last modified: | 2023-12-27 | Method: | SOLUTION NMR | Cite: | The molecular basis for protein kinase A anchoring revealed by solution NMR. Nat.Struct.Biol., 6, 1999
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1UES
| Crystal structure of Porphyromonas gingivalis SOD | Descriptor: | MANGANESE (II) ION, superoxide dismutase | Authors: | Yamakura, F, Sugio, S, Hiraoka, B.Y, Yokota, T, Ohmori, D. | Deposit date: | 2003-05-20 | Release date: | 2004-05-20 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | Pronounced conversion of the metal-specific activity of superoxide dismutase from Porphyromonas gingivalis by the mutation of a single amino acid (Gly155Thr) located apart from the active site Biochemistry, 42, 2003
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3B0F
| Crystal structure of the UBA domain of p62 and its interaction with ubiquitin | Descriptor: | SULFATE ION, Sequestosome-1 | Authors: | Isogai, S, Morimoto, D, Arita, K, Unzai, S, Tenno, T, Hasegawa, J, Sou, Y, Komatsu, M, Tanaka, K, Shirakawa, M, Tochio, H. | Deposit date: | 2011-06-09 | Release date: | 2011-06-29 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (1.4 Å) | Cite: | Crystal structure of the ubiquitin-associated (UBA) domain of p62 and its interaction with ubiquitin. J.Biol.Chem., 286, 2011
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7CNE
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7CJV
| Solution structure of monomeric superoxide dismutase 1 with an additional mutation H46W in a dilute environment | Descriptor: | Monomeric Human Cu,Zn Superoxide dismutase | Authors: | Iwakawa, N, Morimoto, D, Walinda, E, Danielsson, J, Shirakawa, M, Sugase, K. | Deposit date: | 2020-07-14 | Release date: | 2021-05-26 | Last modified: | 2024-05-15 | Method: | SOLUTION NMR | Cite: | Transient Diffusive Interactions with a Protein Crowder Affect Aggregation Processes of Superoxide Dismutase 1 beta-Barrel. J.Phys.Chem.B, 125, 2021
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7CJW
| Solution structure of monomeric superoxide dismutase 1 with an additional mutation H46W in a crowded environment | Descriptor: | Monomeric Human Cu,Zn Superoxide dismutase | Authors: | Iwakawa, N, Morimoto, D, Walinda, E, Danielsson, J, Shirakawa, M, Sugase, K. | Deposit date: | 2020-07-14 | Release date: | 2021-05-26 | Last modified: | 2024-05-15 | Method: | SOLUTION NMR | Cite: | Transient Diffusive Interactions with a Protein Crowder Affect Aggregation Processes of Superoxide Dismutase 1 beta-Barrel. J.Phys.Chem.B, 125, 2021
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7D8K
| Solution structure of the methyl-CpG binding domain of MBD6 from Arabidopsis thaliana | Descriptor: | Methyl-CpG-binding domain-containing protein 6 | Authors: | Mahana, Y, Ohki, I, Walinda, E, Morimoto, D, Sugase, K, Shirakawa, M. | Deposit date: | 2020-10-08 | Release date: | 2021-10-20 | Last modified: | 2024-05-15 | Method: | SOLUTION NMR | Cite: | Structural Insights into Methylated DNA Recognition by the Methyl-CpG Binding Domain of MBD6 from Arabidopsis thaliana . Acs Omega, 7, 2022
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7YM0
| Lysoplasmalogen-specific phospholipase D (LyPls-PLD) with Ca2+ | Descriptor: | CALCIUM ION, Lysoplasmalogenase | Authors: | Yasutake, Y, Sakasegawa, S, Sugimori, D, Murayama, K. | Deposit date: | 2022-07-27 | Release date: | 2023-01-04 | Method: | X-RAY DIFFRACTION (2.91 Å) | Cite: | Structural basis for the substrate specificity switching of lysoplasmalogen-specific phospholipase D from Thermocrispum sp. RD004668. Biosci.Biotechnol.Biochem., 87, 2022
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7YMQ
| Crystal structure of lysoplasmalogen specific phopholipase D, F211L mutant | Descriptor: | Lysoplasmalogenase | Authors: | Murayama, K, Kato-Murayama, M, Sugimori, D, Shirouzu, M, Hamana, H. | Deposit date: | 2022-07-29 | Release date: | 2023-02-08 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.29 Å) | Cite: | Structural basis for the substrate specificity switching of lysoplasmalogen-specific phospholipase D from Thermocrispum sp. RD004668. Biosci.Biotechnol.Biochem., 87, 2022
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7YMR
| Complex structure of lysoplasmalogen specific phopholipase D, F211L mutant with LPC | Descriptor: | Lysoplasmalogenase, [(2~{R})-2-oxidanyl-3-[oxidanyl-[2-(trimethyl-$l^{5}-azanyl)ethoxy]phosphoryl]oxy-propyl] hexadecanoate | Authors: | Murayama, K, Kato-Murayama, M, Sugimori, D, Shirouzu, M, Hamana, H. | Deposit date: | 2022-07-29 | Release date: | 2023-02-08 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.69 Å) | Cite: | Structural basis for the substrate specificity switching of lysoplasmalogen-specific phospholipase D from Thermocrispum sp. RD004668. Biosci.Biotechnol.Biochem., 87, 2022
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7YMP
| Crystal structure of lysoplasmalogen specific phospholipase D | Descriptor: | Lysoplasmalogenase | Authors: | Murayama, K, Kato-Murayama, M, Sugimori, D, Shirouzu, M, Hamana, H. | Deposit date: | 2022-07-29 | Release date: | 2023-02-08 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.57 Å) | Cite: | Structural basis for the substrate specificity switching of lysoplasmalogen-specific phospholipase D from Thermocrispum sp. RD004668. Biosci.Biotechnol.Biochem., 87, 2022
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4HYQ
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7S1G
| wild-type Escherichia coli stalled ribosome with antibiotic linezolid | Descriptor: | 16S rRNA, 23S rRNA, 30S ribosomal protein S10, ... | Authors: | Young, I.D, Stojkovic, V, Tsai, K, Lee, D.J, Fraser, J.S, Galonic Fujimori, D. | Deposit date: | 2021-09-02 | Release date: | 2021-11-17 | Last modified: | 2023-11-15 | Method: | ELECTRON MICROSCOPY (2.48 Å) | Cite: | Structural basis for context-specific inhibition of translation by oxazolidinone antibiotics. Nat.Struct.Mol.Biol., 29, 2022
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7S1H
| Wild-type Escherichia coli ribosome with antibiotic linezolid | Descriptor: | 16S rRNA, 23S rRNA, 30S ribosomal protein S10, ... | Authors: | Young, I.D, Stojkovic, V, Tsai, K, Lee, D.J, Fraser, J.S, Galonic Fujimori, D. | Deposit date: | 2021-09-02 | Release date: | 2021-11-17 | Last modified: | 2023-11-15 | Method: | ELECTRON MICROSCOPY (2.35 Å) | Cite: | Structural basis for context-specific inhibition of translation by oxazolidinone antibiotics. Nat.Struct.Mol.Biol., 29, 2022
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