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Crystal structure of an activity-based probe HNE complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1PPG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 293 0.1M Tris pH8, 0.8M ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 2.18 43.51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.12 α = 90 b = 73.12 β = 90 c = 69.451 γ = 120
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 315r 2014-04-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A 1.075 NSLS X29A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) 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 1.63 69.45 100 0.097 0.031 0.997 14.7 10.7 26261
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.63 1.66 100 0.626 0.216 0.856 3.1 9.2 1298
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1PPG 1.63 63.32 26239 1366 99.98 0.14 0.1384 0.1689 0.185 RANDOM 18.125
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] -0.43 -0.21 -0.43 1.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.947 r_dihedral_angle_4_deg 16.717 r_dihedral_angle_3_deg 11.427 r_dihedral_angle_1_deg 6.969 r_mcangle_it 3.348 r_mcbond_it 2.218 r_mcbond_other 2.216 r_angle_refined_deg 1.868 r_angle_other_deg 1.244 r_chiral_restr 0.099
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.947 r_dihedral_angle_4_deg 16.717 r_dihedral_angle_3_deg 11.427 r_dihedral_angle_1_deg 6.969 r_mcangle_it 3.348 r_mcbond_it 2.218 r_mcbond_other 2.216 r_angle_refined_deg 1.868 r_angle_other_deg 1.244 r_chiral_restr 0.099 r_bond_refined_d 0.014 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1664 Nucleic Acid Atoms Solvent Atoms 202 Heterogen Atoms 159
Software Software Software Name Purpose MOSFLM data reduction Aimless data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction