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Polar and non-polar cavities in phage T4 lysozyme
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.9 277 2.0-2.2 M NaH2PO4 and K2HPO4, pH 6.9, 5mM BME, 5mM oxidized BME, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.7 54.42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.226 α = 90 b = 60.226 β = 90 c = 96.677 γ = 120
Symmetry Space Group P 32 2 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 CCD ADSC QUANTUM 315 2007-01-25 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.1 0.9796,0.9797,0.9742,0.9807 ALS 8.2.1
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 1.25 52.2 99.9 0.115 23.2 9.6 56299 2 11.6
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 1.25 1.27 100 0.214 13.9 7.1 2753
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 1.25 52.13 53423 2851 99.81 0.15626 0.15538 0.1789 0.17281 RANDOM 14.834
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] -0.6 -0.3 -0.6 0.9
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.99 r_dihedral_angle_4_deg 12.38 r_dihedral_angle_3_deg 9.729 r_dihedral_angle_1_deg 4.551 r_scangle_it 3.414 r_scbond_it 2.393 r_mcangle_it 1.152 r_angle_refined_deg 1.142 r_mcbond_it 0.671 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.99 r_dihedral_angle_4_deg 12.38 r_dihedral_angle_3_deg 9.729 r_dihedral_angle_1_deg 4.551 r_scangle_it 3.414 r_scbond_it 2.393 r_mcangle_it 1.152 r_angle_refined_deg 1.142 r_mcbond_it 0.671 r_nbtor_refined 0.306 r_nbd_refined 0.202 r_symmetry_vdw_refined 0.196 r_symmetry_hbond_refined 0.188 r_xyhbond_nbd_refined 0.121 r_chiral_restr 0.069 r_metal_ion_refined 0.052 r_bond_refined_d 0.007 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1305 Nucleic Acid Atoms Solvent Atoms 256 Heterogen Atoms 57
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction SCALEPACK data scaling MLPHARE phasing