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Hen egg-white lysozyme modified with a keto-ABNO.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2LYZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.5 293 0.8M NaCl, 0.05M AcOH
Crystal Properties Matthews coefficient Solvent content 2.01 38.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.03 α = 90 b = 79.03 β = 90 c = 36.91 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 95 IMAGE PLATE RIGAKU RAXIS VII 2015-09-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 50 99.7 0.053 16.3 4.3 8266
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.11 100 9.4 4
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 2LYZ 2 50 7863 383 99.53 0.18522 0.18225 0.1903 0.24823 0.2506 RANDOM 27.938
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 -0.6 1.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.679 r_dihedral_angle_4_deg 22.307 r_dihedral_angle_3_deg 13.356 r_long_range_B_refined 6.798 r_long_range_B_other 6.699 r_dihedral_angle_1_deg 6.251 r_scangle_other 4.976 r_mcangle_other 3.158 r_mcangle_it 3.153 r_scbond_it 3.069
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.679 r_dihedral_angle_4_deg 22.307 r_dihedral_angle_3_deg 13.356 r_long_range_B_refined 6.798 r_long_range_B_other 6.699 r_dihedral_angle_1_deg 6.251 r_scangle_other 4.976 r_mcangle_other 3.158 r_mcangle_it 3.153 r_scbond_it 3.069 r_scbond_other 3.066 r_mcbond_it 2.204 r_mcbond_other 2.168 r_angle_refined_deg 1.829 r_angle_other_deg 0.928 r_chiral_restr 0.099 r_bond_refined_d 0.016 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 987 Nucleic Acid Atoms Solvent Atoms 107 Heterogen Atoms 26
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction SCALA data scaling MOLREP phasing