6O6B
| Rotavirus A-VP3 (RVA-VP3) | Descriptor: | GUANOSINE-5'-MONOPHOSPHATE, Protein VP3 | Authors: | Kumar, D, Yu, X, Prasad, V, Wang, Z. | Deposit date: | 2019-03-05 | Release date: | 2020-03-11 | Last modified: | 2024-03-20 | Method: | ELECTRON MICROSCOPY (2.7 Å) | Cite: | A sub-atomic resolution cryo-EM of full-length Rotavirus A-VP3 (RVA-VP3) To Be Published
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6OVX
| Crystal structure of mithramycin 3-side chain keto-reductase MtmW in complex with NAD+, P422 form | Descriptor: | GLYCEROL, NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE, Putative side chain reductase | Authors: | Hou, C, Yu, X, Rohr, J, Tsodikov, O.V. | Deposit date: | 2019-05-08 | Release date: | 2019-11-27 | Last modified: | 2023-10-11 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Discovery of a Cryptic Intermediate in Late Steps of Mithramycin Biosynthesis. Angew.Chem.Int.Ed.Engl., 59, 2020
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6OW0
| Crystal structure of mithramycin 3-side chain keto-reductase MtmW in complex with NAD+ and PEG | Descriptor: | DI(HYDROXYETHYL)ETHER, GLYCEROL, MtmW, ... | Authors: | Hou, C, Yu, X, Rohr, J, Tsodikov, O.V. | Deposit date: | 2019-05-08 | Release date: | 2019-11-27 | Last modified: | 2023-10-11 | Method: | X-RAY DIFFRACTION (2.67 Å) | Cite: | Discovery of a Cryptic Intermediate in Late Steps of Mithramycin Biosynthesis. Angew.Chem.Int.Ed.Engl., 59, 2020
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2FG6
| N-succinyl-L-ornithine transcarbamylase from B. fragilis complexed with sulfate and N-succinyl-L-norvaline | Descriptor: | N-(3-CARBOXYPROPANOYL)-L-NORVALINE, SULFATE ION, putative ornithine carbamoyltransferase | Authors: | Shi, D, Yu, X, Malamy, M.H, Allewell, N.M, Mendel, T. | Deposit date: | 2005-12-21 | Release date: | 2006-05-23 | Last modified: | 2023-08-30 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | Structure and catalytic mechanism of a novel N-succinyl-L-ornithine transcarbamylase in arginine biosynthesis of Bacteroides fragilis. J.Biol.Chem., 281, 2006
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3TXX
| Crystal structure of putrescine transcarbamylase from Enterococcus faecalis | Descriptor: | Putrescine carbamoyltransferase, SULFATE ION | Authors: | Shi, D, Yu, X, Zhao, G, Allewell, N.M, Tuchman, M. | Deposit date: | 2011-09-23 | Release date: | 2012-02-01 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (3.2 Å) | Cite: | Crystal structure of putrescine transcarbamylase from Enterococcus faecalis: Structural insights into the oligomeric assembly and the active site To be Published
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3S7Y
| Crystal structure of mmNAGS in Space Group P3121 at 4.3 A resolution | Descriptor: | N-acetylglutamate kinase / N-acetylglutamate synthase | Authors: | Shi, D, Li, Y, Cabrera-Luque, J, Jin, Z, Yu, X, Allewell, N.M, Tuchman, M. | Deposit date: | 2011-05-27 | Release date: | 2012-04-18 | Last modified: | 2023-09-13 | Method: | X-RAY DIFFRACTION (4.3077 Å) | Cite: | A Novel N-acetylglutamate synthase architecture revealed by the crystal structure of the bifunctional enzyme from Maricaulis maris. Plos One, 6, 2011
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2HI5
| Model for bacteriophage fd from cryo-EM | Descriptor: | Coat protein B | Authors: | Wang, Y.A, Yu, X, Overman, S, Tsuboi, M, Thomas, G.J, Egelman, E.H. | Deposit date: | 2006-06-29 | Release date: | 2007-08-07 | Last modified: | 2024-02-14 | Method: | ELECTRON MICROSCOPY (8 Å) | Cite: | The Structure of a Filamentous Bacteriophage J.Mol.Biol., 361, 2006
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3S6G
| Crystal structures of Seleno-substituted mutant mmNAGS in space group P212121 | Descriptor: | 1,2-ETHANEDIOL, COENZYME A, MALONATE ION, ... | Authors: | Shi, D, Li, Y, Cabrera-Luque, J, Jin, Z, Yu, X, Allewell, N.M, Tuchman, M. | Deposit date: | 2011-05-25 | Release date: | 2012-04-18 | Last modified: | 2017-11-08 | Method: | X-RAY DIFFRACTION (2.6681 Å) | Cite: | A Novel N-acetylglutamate synthase architecture revealed by the crystal structure of the bifunctional enzyme from Maricaulis maris. Plos One, 6, 2011
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3S6H
| Crystal structure of native mmNAGS/k | Descriptor: | COENZYME A, GLUTAMIC ACID, N-acetylglutamate kinase / N-acetylglutamate synthase | Authors: | Shi, D, Li, Y, Cabrera-Luque, J, Jin, Z, Yu, X, Allewell, N.M, Tuchman, M. | Deposit date: | 2011-05-25 | Release date: | 2012-04-25 | Last modified: | 2023-09-13 | Method: | X-RAY DIFFRACTION (3.102 Å) | Cite: | A Novel N-acetylglutamate synthase architecture revealed by the crystal structure of the bifunctional enzyme from Maricaulis maris. Plos One, 6, 2011
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3J9X
| A Virus that Infects a Hyperthermophile Encapsidates A-Form DNA | Descriptor: | DNA, coat protein | Authors: | DiMaio, F, Yu, X, Rensen, E, Krupovic, M, Prangishvili, D, Egelman, E. | Deposit date: | 2015-03-21 | Release date: | 2015-06-03 | Last modified: | 2024-02-21 | Method: | ELECTRON MICROSCOPY (3.8 Å) | Cite: | A virus that infects a hyperthermophile encapsidates A-form DNA. Science, 348, 2015
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3J9R
| Atomic structures of a bactericidal contractile nanotube in its pre- and post-contraction states | Descriptor: | sheath | Authors: | Ge, P, Scholl, D, Leiman, P.G, Yu, X, Miller, J.F, Zhou, Z.H. | Deposit date: | 2015-02-17 | Release date: | 2015-04-01 | Last modified: | 2024-02-21 | Method: | ELECTRON MICROSCOPY (3.9 Å) | Cite: | Atomic structures of a bactericidal contractile nanotube in its pre- and postcontraction states. Nat.Struct.Mol.Biol., 22, 2015
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3J89
| Structural Plasticity of Helical Nanotubes Based on Coiled-Coil Assemblies | Descriptor: | synthetic peptide | Authors: | Egelman, E.H, Xu, C, DiMaio, F, Magnotti, E, Modlin, C, Yu, X, Wright, E, Baker, D, Conticello, V.P. | Deposit date: | 2014-10-07 | Release date: | 2015-02-11 | Last modified: | 2024-02-21 | Method: | ELECTRON MICROSCOPY (3.6 Å) | Cite: | Structural plasticity of helical nanotubes based on coiled-coil assemblies. Structure, 23, 2015
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3J9Q
| Atomic structures of a bactericidal contractile nanotube in its pre- and post-contraction states | Descriptor: | sheath, tube | Authors: | Ge, P, Scholl, D, Leiman, P.G, Yu, X, Miller, J.F, Zhou, Z.H. | Deposit date: | 2015-02-17 | Release date: | 2015-04-01 | Last modified: | 2024-02-21 | Method: | ELECTRON MICROSCOPY (3.5 Å) | Cite: | Atomic structures of a bactericidal contractile nanotube in its pre- and postcontraction states. Nat.Struct.Mol.Biol., 22, 2015
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4P3O
| Structural Basis for Full-Spectrum Inhibition of Threonyl-tRNA Synthetase by Borrelidin 2 | Descriptor: | (1R,2R)-2-[(2S,4E,6E,8R,9S,11R,13S,15S,16S)-7-cyano-8,16-dihydroxy-9,11,13,15-tetramethyl-18-oxooxacyclooctadeca-4,6-dien-2-yl]cyclopentanecarboxylic acid, GLYCEROL, Threonine--tRNA ligase, ... | Authors: | Fang, P, Yu, X, Chen, K, Chen, X, Guo, M. | Deposit date: | 2014-03-09 | Release date: | 2015-03-11 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (2.505 Å) | Cite: | Structural basis for full-spectrum inhibition of translational functions on a tRNA synthetase. Nat Commun, 6, 2015
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4P3P
| Structural Basis for Full-Spectrum Inhibition of Threonyl-tRNA Synthetase by Borrelidin 3 | Descriptor: | (1R,2R)-2-[(2S,4E,6E,8R,9S,11R,13S,15S,16S)-7-cyano-8,16-dihydroxy-9,11,13,15-tetramethyl-18-oxooxacyclooctadeca-4,6-dien-2-yl]cyclopentanecarboxylic acid, GLYCEROL, Threonine--tRNA ligase, ... | Authors: | Fang, P, Yu, X, Chen, K, Chen, X, Guo, M. | Deposit date: | 2014-03-09 | Release date: | 2015-03-11 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Structural basis for full-spectrum inhibition of translational functions on a tRNA synthetase. Nat Commun, 6, 2015
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4P3N
| Structural Basis for Full-Spectrum Inhibition of Threonyl-tRNA Synthetase by Borrelidin 1 | Descriptor: | (1R,2R)-2-[(2S,4E,6E,8R,9S,11R,13S,15S,16S)-7-cyano-8,16-dihydroxy-9,11,13,15-tetramethyl-18-oxooxacyclooctadeca-4,6-dien-2-yl]cyclopentanecarboxylic acid, Threonine--tRNA ligase, cytoplasmic, ... | Authors: | Fang, P, Yu, X, Chen, K, Chen, X, Guo, M. | Deposit date: | 2014-03-09 | Release date: | 2015-03-11 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (2.6 Å) | Cite: | Structural basis for full-spectrum inhibition of translational functions on a tRNA synthetase. Nat Commun, 6, 2015
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3Q98
| Structure of ygeW encoded protein from E. coli | Descriptor: | transcarbamylase | Authors: | Li, Y, Jing, Z, Yu, X, Allewell, N.M, Tuchman, M, Shi, D. | Deposit date: | 2011-01-07 | Release date: | 2011-05-04 | Last modified: | 2018-06-06 | Method: | X-RAY DIFFRACTION (2.001 Å) | Cite: | The ygeW encoded protein from Escherichia coli is a knotted ancestral catabolic transcarbamylase. Proteins, 79, 2011
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8JRN
| Structure of E6AP-E6 complex in Att1 state | Descriptor: | Protein E6, Ubiquitin-protein ligase E3A, ZINC ION | Authors: | Wang, Z, Yu, X. | Deposit date: | 2023-06-17 | Release date: | 2024-06-05 | Method: | ELECTRON MICROSCOPY (2.6 Å) | Cite: | Structural insights into the functional mechanism of the ubiquitin ligase E6AP. Nat Commun, 15, 2024
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8JRQ
| Structure of E6AP-E6 complex in Det1 state | Descriptor: | Protein E6, Ubiquitin-protein ligase E3A, ZINC ION | Authors: | Wang, Z, Yu, X. | Deposit date: | 2023-06-17 | Release date: | 2024-06-05 | Method: | ELECTRON MICROSCOPY (4.15 Å) | Cite: | Structural insights into the functional mechanism of the ubiquitin ligase E6AP. Nat Commun, 15, 2024
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8JRP
| Structure of E6AP-E6 complex in Att3 state | Descriptor: | Protein E6, Ubiquitin-protein ligase E3A, ZINC ION | Authors: | Wang, Z, Yu, X. | Deposit date: | 2023-06-17 | Release date: | 2024-06-05 | Method: | ELECTRON MICROSCOPY (3.58 Å) | Cite: | Structural insights into the functional mechanism of the ubiquitin ligase E6AP. Nat Commun, 15, 2024
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8JRR
| Structure of E6AP-E6 complex in Det2 state | Descriptor: | Protein E6, Ubiquitin-protein ligase E3A, ZINC ION | Authors: | Wang, Z, Yu, X. | Deposit date: | 2023-06-17 | Release date: | 2024-06-05 | Method: | ELECTRON MICROSCOPY (4.35 Å) | Cite: | Structural insights into the functional mechanism of the ubiquitin ligase E6AP. Nat Commun, 15, 2024
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8JRO
| Structure of E6AP-E6 complex in Att2 state | Descriptor: | Protein E6, Ubiquitin-protein ligase E3A, ZINC ION | Authors: | Wang, Z, Yu, X. | Deposit date: | 2023-06-17 | Release date: | 2024-06-05 | Method: | ELECTRON MICROSCOPY (3.01 Å) | Cite: | Structural insights into the functional mechanism of the ubiquitin ligase E6AP. Nat Commun, 15, 2024
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6BQ1
| Human PI4KIIIa lipid kinase complex | Descriptor: | 5-{2-amino-1-[4-(morpholin-4-yl)phenyl]-1H-benzimidazol-6-yl}-N-(2-fluorophenyl)-2-methoxypyridine-3-sulfonamide, Phosphatidylinositol 4-kinase III alpha (PI4KA), Protein FAM126A, ... | Authors: | Lees, J.A, Zhang, Y, Oh, M, Schauder, C.M, Yu, X, Baskin, J, Dobbs, K, Notarangelo, L.D, Camilli, P.D, Walz, T, Reinisch, K.M. | Deposit date: | 2017-11-27 | Release date: | 2017-12-13 | Last modified: | 2024-03-13 | Method: | ELECTRON MICROSCOPY (3.6 Å) | Cite: | Architecture of the human PI4KIII alpha lipid kinase complex. Proc. Natl. Acad. Sci. U.S.A., 114, 2017
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6DU2
| Structure of Scp1 D96N bound to REST-pS861/4 peptide | Descriptor: | MAGNESIUM ION, REST-pS861/4, carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase 1 isoform X2 | Authors: | Burkholder, N.T, Mayfield, J.E, Yu, X, Irani, S, Arce, D.K, Jiang, F, Matthews, W, Xue, Y, Zhang, Y.J. | Deposit date: | 2018-06-19 | Release date: | 2018-09-26 | Last modified: | 2020-01-01 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Phosphatase activity of small C-terminal domain phosphatase 1 (SCP1) controls the stability of the key neuronal regulator RE1-silencing transcription factor (REST). J. Biol. Chem., 293, 2018
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6DU3
| Structure of Scp1 D96N bound to REST-pS861/4 peptide | Descriptor: | Carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase 1, MAGNESIUM ION, REST-pS861 | Authors: | Burkholder, N.T, Mayfield, J.E, Yu, X, Irani, S, Arce, D.K, Jiang, F, Matthews, W, Xue, Y, Zhang, Y.J. | Deposit date: | 2018-06-19 | Release date: | 2018-09-26 | Last modified: | 2020-01-01 | Method: | X-RAY DIFFRACTION (2.58 Å) | Cite: | Phosphatase activity of small C-terminal domain phosphatase 1 (SCP1) controls the stability of the key neuronal regulator RE1-silencing transcription factor (REST). J. Biol. Chem., 293, 2018
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