+Open data
-Basic information
Entry | Database: PDB / ID: 2f4u | ||||||||||||||||||
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Title | Asite RNA + designer antibiotic | ||||||||||||||||||
Components | 5'-R(*Keywords | RNA / Asite RNA / designer antibiotic | Function / homology | Chem-AB6 / RNA / RNA (> 10) | Function and homology information Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 2.6 Å | Authors | Murray, J.B. / Meroueh, S.O. / Russell, R.J. / Lentzen, G. / Haddad, J. / Mobashery, S. | Citation | Journal: Chem.Biol. / Year: 2006 | Title: Interactions of designer antibiotics and the bacterial ribosomal aminoacyl-tRNA site Authors: Murray, J.B. / Meroueh, S.O. / Russell, R.J. / Lentzen, G. / Haddad, J. / Mobashery, S. History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2f4u.cif.gz | 34.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2f4u.ent.gz | 23.7 KB | Display | PDB format |
PDBx/mmJSON format | 2f4u.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2f4u_validation.pdf.gz | 449.7 KB | Display | wwPDB validaton report |
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Full document | 2f4u_full_validation.pdf.gz | 454.7 KB | Display | |
Data in XML | 2f4u_validation.xml.gz | 3.2 KB | Display | |
Data in CIF | 2f4u_validation.cif.gz | 4.5 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/f4/2f4u ftp://data.pdbj.org/pub/pdb/validation_reports/f4/2f4u | HTTPS FTP |
-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: RNA chain | Mass: 6743.077 Da / Num. of mol.: 2 / Source method: obtained synthetically / Details: A-site RNA #2: Chemical | ChemComp-AB6 / ( | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.55 Å3/Da / Density % sol: 51.79 % |
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-Data collection
Diffraction | Mean temperature: 100 K | |||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU RU300 / Wavelength: 1.54 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Detector | Date: Jun 1, 2002 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation wavelength | Wavelength: 1.54 Å / Relative weight: 1 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection | Resolution: 2.6→23.23 Å / Num. all: 4451 / Num. obs: 4451 / % possible obs: 97.6 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Rmerge(I) obs: 0.092 / Net I/σ(I): 5.8 / Scaling rejects: 300 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection shell |
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-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 2.6→23.23 Å / σ(F): 161 / Stereochemistry target values: Engh & Huber
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Solvent computation | Bsol: 95.919 Å2 | |||||||||||||||||||||||||
Displacement parameters | Biso mean: 56.636 Å2
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Refinement step | Cycle: LAST / Resolution: 2.6→23.23 Å
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Xplor file |
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