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Crystal structure of macro domain of Chikungunya virus in complex with RNA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3GPG PDB entry 3GPG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.4 293 46% PEG 600, 100 mM hepes, pH 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.32 46.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.824 α = 90 b = 86.824 β = 90 c = 81.316 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 4 2007-06-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 0.9330 ESRF ID14-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2 28.421 99.6 0.052 0.052 4.6 46210 46206 35.809
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.11 100 0.525 0.525 0.9 4.5 6793
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION THROUGHOUT PDB entry 3GPG 2 28.42 46173 2379 99.64 0.218 0.215 0.2296 0.26 0.2685 RANDOM 29.021
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] -0.1 -0.05 -0.1 0.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.389 r_dihedral_angle_4_deg 22.965 r_dihedral_angle_3_deg 17.513 r_dihedral_angle_1_deg 5.869 r_scangle_it 3.501 r_scbond_it 2.155 r_angle_refined_deg 1.398 r_mcangle_it 1.188 r_mcbond_it 0.675 r_chiral_restr 0.092
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.389 r_dihedral_angle_4_deg 22.965 r_dihedral_angle_3_deg 17.513 r_dihedral_angle_1_deg 5.869 r_scangle_it 3.501 r_scbond_it 2.155 r_angle_refined_deg 1.398 r_mcangle_it 1.188 r_mcbond_it 0.675 r_chiral_restr 0.092 r_bond_refined_d 0.014 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4744 Nucleic Acid Atoms 80 Solvent Atoms 250 Heterogen Atoms
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction ADSC data collection