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2-phenoxyethanol in complex with T4 lysozyme L99A/M102Q
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1LGU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.1 277 2.2M sodium-potassium phosphate, 0.05M beta-mercaptoethanol, 0.05M 2-hydroxyethyldisulfide, pH 7.1, vapor diffusion, hanging drop, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.73 54.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.135 α = 90 b = 60.135 β = 90 c = 96.307 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 110 CCD ADSC QUANTUM 315 KOHZU: Double Crystal Si(111) 2007-05-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 1.115872 ALS 8.3.1
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 1.433 52.06 99.9 0.076 15.8 5.5 37457 37457
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) 1.433 1.48 100 0.376 5.2 3708
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION THROUGHOUT 1LGU 1.433 52.06 37412 37412 1875 99.4 0.181 0.181 0.18 0.2 0.2288 RANDOM 15.595
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] -0.08 -0.04 -0.08 0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.265 r_dihedral_angle_4_deg 16.814 r_dihedral_angle_3_deg 11.607 r_dihedral_angle_1_deg 4.587 r_sphericity_free 2.881 r_scangle_it 2.495 r_sphericity_bonded 2.059 r_scbond_it 1.88 r_angle_refined_deg 1.122 r_rigid_bond_restr 1.098
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.265 r_dihedral_angle_4_deg 16.814 r_dihedral_angle_3_deg 11.607 r_dihedral_angle_1_deg 4.587 r_sphericity_free 2.881 r_scangle_it 2.495 r_sphericity_bonded 2.059 r_scbond_it 1.88 r_angle_refined_deg 1.122 r_rigid_bond_restr 1.098 r_mcangle_it 1.048 r_mcbond_it 0.795 r_nbtor_refined 0.307 r_nbd_refined 0.199 r_symmetry_vdw_refined 0.196 r_symmetry_hbond_refined 0.17 r_xyhbond_nbd_refined 0.131 r_chiral_restr 0.072 r_bond_refined_d 0.007 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1358 Nucleic Acid Atoms Solvent Atoms 286 Heterogen Atoms 15
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection REFMAC phasing