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Yorodumi- PDB-2lc9: Solution Structure of a Minor and Transiently Formed State of a T... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2lc9 | ||||||
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Title | Solution Structure of a Minor and Transiently Formed State of a T4 Lysozyme Mutant | ||||||
Components | Lysozyme | ||||||
Keywords | HYDROLASE | ||||||
Function / homology | Function and homology information viral release from host cell by cytolysis / peptidoglycan catabolic process / cell wall macromolecule catabolic process / lysozyme / lysozyme activity / host cell cytoplasm / defense response to bacterium Similarity search - Function | ||||||
Biological species | Enterobacteria phage T4 (virus) | ||||||
Method | SOLUTION NMR / distance geometry, simulated annealing | ||||||
Model details | lowest energy, model 1 | ||||||
Authors | Bouvignies, G. / Vallurupalli, P. / Hansen, D. / Correia, B. / Lange, O. / Bah, A. / Vernon, R.M. / Dahlquist, F.W. / Baker, D. / Kay, L.E. | ||||||
Citation | Journal: Nature / Year: 2011 Title: Solution structure of a minor and transiently formed state of a T4 lysozyme mutant. Authors: Bouvignies, G. / Vallurupalli, P. / Hansen, D.F. / Correia, B.E. / Lange, O. / Bah, A. / Vernon, R.M. / Dahlquist, F.W. / Baker, D. / Kay, L.E. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2lc9.cif.gz | 506.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2lc9.ent.gz | 428.2 KB | Display | PDB format |
PDBx/mmJSON format | 2lc9.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/lc/2lc9 ftp://data.pdbj.org/pub/pdb/validation_reports/lc/2lc9 | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 18540.229 Da / Num. of mol.: 1 / Mutation: C54T, C97A, L99A, G113A, R119P Source method: isolated from a genetically manipulated source Source: (gene. exp.) Enterobacteria phage T4 (virus) / Gene: E / Production host: Escherichia coli (E. coli) / Strain (production host): BL21(DE3) / References: UniProt: P00720, lysozyme |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR / Details: T4 Lysozyme L99A/G113A/R119P Structural model | ||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 1.5 mM [U-100% 13C; U-100% 15N] T4 L99A/G113A/R119P, 90% H2O/10% D2O Solvent system: 90% H2O/10% D2O | |||||||||||||||
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Sample | Conc.: 1.5 mM / Component: T4 L99A/G113A/R119P-1 / Isotopic labeling: [U-100% 13C; U-100% 15N] | |||||||||||||||
Sample conditions |
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-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: distance geometry, simulated annealing / Software ordinal: 1 / Details: Rosetta Loop Building/Refinement Protocol | ||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||
NMR ensemble | Conformer selection criteria: Two Step Selection Criteria based on chemical shift score and Rosetta energy Conformers calculated total number: 9600 / Conformers submitted total number: 10 |