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Effect of Ariginine on lysozyme
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1HEL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.5 298 1.5M NaCl, 0.5M Arg, pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2 38.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.357 α = 90 b = 78.357 β = 90 c = 37.312 γ = 90
Symmetry Space Group P 43 21 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 IMAGE PLATE RIGAKU RAXIS RIGAKU RAXIS IV 2008-07-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU ULTRAX 18 1.54184
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 1.651 33.69 90.3 0.048 0.048 11.182 6.4 13095
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) 1.65 1.74 48.7 0.107 0.107 6.5 2 982
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 1HEL 1.651 33.69 13066 657 90.2 0.207 0.206 0.2031 0.235 0.2309 RANDOM 12.075
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] -0.15 -0.15 0.29
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.128 r_dihedral_angle_4_deg 13.149 r_dihedral_angle_3_deg 11.837 r_dihedral_angle_1_deg 5.377 r_scangle_it 1.88 r_scbond_it 1.172 r_angle_refined_deg 0.979 r_mcangle_it 0.696 r_mcbond_it 0.363 r_nbtor_refined 0.294
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.128 r_dihedral_angle_4_deg 13.149 r_dihedral_angle_3_deg 11.837 r_dihedral_angle_1_deg 5.377 r_scangle_it 1.88 r_scbond_it 1.172 r_angle_refined_deg 0.979 r_mcangle_it 0.696 r_mcbond_it 0.363 r_nbtor_refined 0.294 r_nbd_refined 0.197 r_symmetry_vdw_refined 0.18 r_symmetry_hbond_refined 0.11 r_xyhbond_nbd_refined 0.108 r_metal_ion_refined 0.081 r_chiral_restr 0.079 r_bond_refined_d 0.006 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1029 Nucleic Acid Atoms Solvent Atoms 113 Heterogen Atoms 50
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection