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Crystal structure of SsoPox AsA6 mutant (F46L-C258A-W263M-I280T) - open form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2VC5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 293 20-30 % (w/v) PEG 8000 and 50 mM Tris-HCl buffer (pH 8)
Crystal Properties Matthews coefficient Solvent content 2.32 47.02
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.28 α = 90 b = 137.2 β = 98.7 c = 49.36 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS3 S 6M 2011-10-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.97934 ESRF ID29
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.4 48.7 96.1 0.082 9.07 3.44 121915
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.4 1.5 0.334
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 2vc5 1.4 45.97 115818 6096 96.09 0.14083 0.13902 0.1614 0.17539 0.1878 RANDOM 22.065
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] 0.02 0.21 -0.17 0.08
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 32.773 r_dihedral_angle_2_deg 32.276 r_rigid_bond_restr 21.105 r_dihedral_angle_4_deg 17.271 r_dihedral_angle_3_deg 13.62 r_sphericity_bonded 10.532 r_dihedral_angle_1_deg 5.888 r_long_range_B_refined 5.115 r_long_range_B_other 4.65 r_scbond_it 4.521
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 32.773 r_dihedral_angle_2_deg 32.276 r_rigid_bond_restr 21.105 r_dihedral_angle_4_deg 17.271 r_dihedral_angle_3_deg 13.62 r_sphericity_bonded 10.532 r_dihedral_angle_1_deg 5.888 r_long_range_B_refined 5.115 r_long_range_B_other 4.65 r_scbond_it 4.521 r_scbond_other 4.52 r_scangle_other 4.438 r_mcangle_it 3.728 r_mcangle_other 3.728 r_mcbond_it 3.526 r_mcbond_other 3.526 r_angle_other_deg 1.876 r_angle_refined_deg 1.278 r_chiral_restr 0.086 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_gen_planes_other 0.003 r_bond_other_d 0.002 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5004 Nucleic Acid Atoms Solvent Atoms 634 Heterogen Atoms 62
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling MOLREP phasing