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Zn-dependent D-aminopeptidase DppA from Bacillus subtilis, a self-compartmentalizing protease.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8.5 18% PEG6000, 100MM TRIS, PH 8.5, 5MM NACL, 5MM MGCL2
Crystal Properties Matthews coefficient Solvent content 2.16 43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 145.11 α = 90 b = 165.86 β = 90 c = 109.93 γ = 90
Symmetry Space Group C 2 2 21
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 MARRESEARCH 1999-10-15 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7B 0.8445,1.2832,1.2834 EMBL/DESY, HAMBURG BW7B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.403 20 96.9 0.055 11.7 3.48 51831 48.6
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.4 2.49 98.6 0.247 3.7 3.5
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 MAD THROUGHOUT 2.4 15 49995 2544 96.8 0.232 0.232 0.2321 0.268 0.2667 RANDOM 44.9
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] 11.275 -11.094 -0.182
RMS Deviations Key Refinement Restraint Deviation c_scangle_it 2.65 c_scbond_it 1.8 c_mcangle_it 1.77 c_angle_deg 1.24 c_mcbond_it 1.11 c_bond_d 0.007 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na
RMS Deviations Key Refinement Restraint Deviation c_scangle_it 2.65 c_scbond_it 1.8 c_mcangle_it 1.77 c_angle_deg 1.24 c_mcbond_it 1.11 c_bond_d 0.007 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10570 Nucleic Acid Atoms Solvent Atoms 247 Heterogen Atoms 10
Software Software Software Name Purpose CNS refinement DENZO data reduction SCALEPACK data scaling MLPHARE phasing DM phasing DM phasing