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Crystal structure of VACV D13 in complex with 3-formyl rifamycin SV
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3SAM pdbid 3SAM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.8 298 3.5-4.0 M sodium formate and 0.1 M citric acid
Crystal Properties Matthews coefficient Solvent content 3.6 65.81
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 191.06 α = 90 b = 191.06 β = 90 c = 254.32 γ = 120
Symmetry Space Group P 61 2 2
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 210r 2013-08-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX1 0.953700 Australian Synchrotron MX1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) 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 3.21 19.96 99.9 0.326 0.337 0.991 10.8 15.325 45431 -3 74.72
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.21 3.29 99.8 1.718 1.777 0.631 1.94 15.412
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 MOLECULAR REPLACEMENT THROUGHOUT pdbid 3SAM 3.21 19.96 45091 2255 100 0.197 0.195 0.1977 0.221 0.2202 RANDOM 58.35
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] 4.2689 4.2689 -8.5377
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 18.19 t_omega_torsion 2 t_angle_deg 0.92 t_bond_d 0.007 t_dihedral_angle_d t_trig_c_planes t_gen_planes t_it t_nbd t_improper_torsion
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 18.19 t_omega_torsion 2 t_angle_deg 0.92 t_bond_d 0.007 t_dihedral_angle_d t_trig_c_planes t_gen_planes t_it t_nbd t_improper_torsion t_pseud_angle t_chiral_improper_torsion t_sum_occupancies t_utility_distance t_utility_angle t_utility_torsion t_ideal_dist_contact
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12624 Nucleic Acid Atoms Solvent Atoms 256 Heterogen Atoms 100
Software Software Software Name Purpose XSCALE data scaling BUSTER refinement PDB_EXTRACT data extraction XDS data reduction Coot model building BUSTER phasing