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Crystal structure of I88L single mutant of O-acetylserine sulfhydrylase from Haemophilus influenzae in complex with high-affinity inhibitory peptide from serine acetyltransferase of Haemophilus influenzae at 2.5 A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1Y7L 1Y7L
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 278 0.1M HEPES, 1.3M Sodium citrate
Crystal Properties Matthews coefficient Solvent content 2.05 40.06
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 112.75 α = 90 b = 112.75 β = 90 c = 44.46 γ = 90
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 293 IMAGE PLATE MAR scanner 345 mm plate 2012-09-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.54179
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) 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 2.5 41.36 99.54 0.886 126.45 15.5 9865 35.63
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.5 2.581 99.69 0.7904 0.835
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1Y7L 2.5 41.36 9828 515 99.585 0.246 0.2435 0.2548 0.2949 0.309 38.395
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] -4.548 -4.548 9.096
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.807 r_dihedral_angle_3_deg 19.363 r_dihedral_angle_4_deg 10.74 r_lrange_it 8.982 r_dihedral_angle_1_deg 7.682 r_mcangle_it 5.043 r_scangle_it 4.799 r_mcbond_it 3.177 r_scbond_it 3.175 r_angle_refined_deg 1.546
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.807 r_dihedral_angle_3_deg 19.363 r_dihedral_angle_4_deg 10.74 r_lrange_it 8.982 r_dihedral_angle_1_deg 7.682 r_mcangle_it 5.043 r_scangle_it 4.799 r_mcbond_it 3.177 r_scbond_it 3.175 r_angle_refined_deg 1.546 r_nbtor_refined 0.304 r_symmetry_xyhbond_nbd_refined 0.294 r_nbd_refined 0.236 r_symmetry_nbd_refined 0.195 r_xyhbond_nbd_refined 0.194 r_chiral_restr 0.116 r_gen_planes_refined 0.007 r_bond_refined_d 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2286 Nucleic Acid Atoms Solvent Atoms 17 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALA data scaling PHASER phasing