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Crystal structure of the Clostridium histolyticum colH collagenase polycystic kidney disease-like domain 2a at 1.76 Angstrom resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.5 290 3 M ammonium sulfate, 0.1 M MES pH 4.5, 15% (w/v) PEG 4000
Crystal Properties Matthews coefficient Solvent content 3.65 66.29
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.33 α = 90 b = 88.33 β = 90 c = 123.56 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 113 CCD RIGAKU SATURN 92 CCD 2013-05-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 1.54180
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 1.76 65.04 99.5 0.068 11.5 4.7 53717
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 1.76 1.82 95.7 0.374 2.3 2.12 5129
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 THROUGHOUT 1.76 65.04 53663 2731 99.36 0.2099 0.2067 0.2024 0.2715 0.243 RANDOM 31.334
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] 0.52 0.26 0.52 -0.78
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.277 r_scangle_it 14.353 r_dihedral_angle_3_deg 13.482 r_scbond_it 12.909 r_dihedral_angle_1_deg 7.304 r_mcangle_it 5.822 r_mcbond_it 4.018 r_angle_refined_deg 1.229 r_chiral_restr 0.119 r_bond_refined_d 0.011
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.277 r_scangle_it 14.353 r_dihedral_angle_3_deg 13.482 r_scbond_it 12.909 r_dihedral_angle_1_deg 7.304 r_mcangle_it 5.822 r_mcbond_it 4.018 r_angle_refined_deg 1.229 r_chiral_restr 0.119 r_bond_refined_d 0.011 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2684 Nucleic Acid Atoms Solvent Atoms 1106 Heterogen Atoms 110
Software Software Software Name Purpose REFMAC refinement d*TREK data reduction PDB_EXTRACT data extraction d*TREK data scaling