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New azaborine compounds bind to the T4 lysozyme L99A cavity -ethylbenzene as control
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3DMV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.9 277 2.0-2.2M K/Na phosphase, 50mM BME, 50mM HED (vapor-diffusion for complex preparation), pH 6.9, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.65 53.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.799 α = 90 b = 59.799 β = 90 c = 95.568 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 Si(220) 2009-04-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.3 0.9791 ALS 5.0.3
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 31.86 99.9 0.052 44.1 14.4 55190 5
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 0.221 9.9 9.3 2715
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 3DMV 1.25 31.86 52192 2789 99.52 0.16278 0.16178 0.1621 0.1817 0.1808 RANDOM 15.496
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] 0.39 0.19 0.39 -0.58
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.23 r_dihedral_angle_3_deg 12.208 r_dihedral_angle_4_deg 11.949 r_dihedral_angle_1_deg 4.758 r_sphericity_free 3.251 r_scangle_it 2.899 r_sphericity_bonded 2.641 r_scbond_it 2.162 r_rigid_bond_restr 1.484 r_mcangle_it 1.37
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.23 r_dihedral_angle_3_deg 12.208 r_dihedral_angle_4_deg 11.949 r_dihedral_angle_1_deg 4.758 r_sphericity_free 3.251 r_scangle_it 2.899 r_sphericity_bonded 2.641 r_scbond_it 2.162 r_rigid_bond_restr 1.484 r_mcangle_it 1.37 r_angle_refined_deg 1.151 r_mcbond_it 0.931 r_nbtor_refined 0.316 r_nbd_refined 0.203 r_symmetry_hbond_refined 0.196 r_symmetry_vdw_refined 0.164 r_xyhbond_nbd_refined 0.154 r_chiral_restr 0.074 r_bond_refined_d 0.007 r_gen_planes_refined 0.005 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_refined 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1297 Nucleic Acid Atoms Solvent Atoms 255 Heterogen Atoms 29
Software Software Software Name Purpose Blu-Ice data collection AMoRE phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling