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(Z)-Thiophene-2-carboxaldoxime in complex with T4 lysozyme L99A/M102Q
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1LGU PDB ENTRY 1LGU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 277 2.2M sodium-potassium phosphate, 0.05M beta-mercaptoethanol, 0.05M 2-hydroxyethyldisulfide, pH 6.5, vapor diffusion, hanging drop, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.72 54.86
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.26 α = 90 b = 60.26 β = 90 c = 96.94 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 296 CCD ADSC QUANTUM 315r 2007-09-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 1.11589 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 1.4 30 99.8 0.087 11.36 6.66 40713 40713 20.734
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) 1.4 1.48 99.7 0.576 2.7 6.22 6131
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION REFMAC THROUGHOUT PDB ENTRY 1LGU 1.4 28.77 40712 40712 815 100 0.168 0.168 0.167 0.1654 0.19 0.1858 RANDOM 15.848
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] 0.44 0.22 0.44 -0.67
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.02 r_dihedral_angle_3_deg 10.122 r_dihedral_angle_4_deg 10.072 r_dihedral_angle_1_deg 4.488 r_sphericity_free 3.035 r_scangle_it 2.386 r_sphericity_bonded 2.353 r_scbond_it 1.776 r_rigid_bond_restr 1.268 r_angle_refined_deg 1.246
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.02 r_dihedral_angle_3_deg 10.122 r_dihedral_angle_4_deg 10.072 r_dihedral_angle_1_deg 4.488 r_sphericity_free 3.035 r_scangle_it 2.386 r_sphericity_bonded 2.353 r_scbond_it 1.776 r_rigid_bond_restr 1.268 r_angle_refined_deg 1.246 r_mcangle_it 1.126 r_mcbond_it 0.71 r_nbtor_refined 0.307 r_nbd_refined 0.219 r_xyhbond_nbd_refined 0.171 r_symmetry_vdw_refined 0.168 r_symmetry_hbond_refined 0.153 r_chiral_restr 0.073 r_bond_refined_d 0.007 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1387 Nucleic Acid Atoms Solvent Atoms 331 Heterogen Atoms 29
Software Software Software Name Purpose XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction ADSC data collection XDS data reduction XDS data scaling REFMAC phasing