☰ Navigation Tabs
Crystal structure of the Clostridium histolyticum colH collagenase polycystic kidney disease-like domain 2a in the presence of calcium at 1.9 Angstrom resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 290 0.2 M magnesium chloride, 0.1 M Tris-HCl pH 8.5, and 30% (w/v) PEG 4000. Crystals soaked in 0.2 M magnesium chloride, 0.05 M calcium chloride, 0.1 M Tris-HCl pH 8.5, and 15% (w/v) PEG 4000
Crystal Properties Matthews coefficient Solvent content 2.72 54.75
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 102.32 α = 90 b = 87.61 β = 116.04 c = 104.35 γ = 90
Symmetry Space Group C 1 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 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 1.91 22.11 96.4 0.046 13.8 3.63 61851
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 1.91 1.98 93.8 0.31 3 3.11 6009
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 1.91 93.76 61839 3119 96.28 0.1651 0.1629 0.1725 0.2073 0.2163 RANDOM 33.81
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] -0.4 -0.48 0.63 -0.65
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.842 r_dihedral_angle_3_deg 14.118 r_scangle_it 11.227 r_dihedral_angle_1_deg 7.059 r_scbond_it 6.771 r_mcangle_it 3.93 r_mcbond_it 2.656 r_angle_refined_deg 1.062 r_chiral_restr 0.1 r_gen_planes_refined 0.019
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.842 r_dihedral_angle_3_deg 14.118 r_scangle_it 11.227 r_dihedral_angle_1_deg 7.059 r_scbond_it 6.771 r_mcangle_it 3.93 r_mcbond_it 2.656 r_angle_refined_deg 1.062 r_chiral_restr 0.1 r_gen_planes_refined 0.019 r_bond_refined_d 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5368 Nucleic Acid Atoms Solvent Atoms 967 Heterogen Atoms 8
Software Software Software Name Purpose REFMAC refinement d*TREK data reduction PDB_EXTRACT data extraction d*TREK data scaling