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Crystallogic studies on the Complex of Carboxypeptidase A with inhibitors using alpha-hydroxy ketone as zinc-binding group
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1HDQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICRODIALYSIS 7.5 277 0.02% glutaraldehyde, 0.15M lithium chloride, pH 7.5, temperature 277K, MICRODIALYSIS
Crystal Properties Matthews coefficient Solvent content 2.03 39.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.347 α = 90 b = 59.786 β = 103.94 c = 99.36 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE RIGAKU RAXIS IV CONFOCAL 2008-11-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.85 50 95.3 0.046 0.046 51.86 3.9 67780 67780 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.85 1.92 90.1 0.093 0.093 29.42 3.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 MOLECULAR REPLACEMENT THROUGHOUT 1HDQ 1.85 50 67780 64744 3474 95.52 0.209 0.209 0.2124 0.238 0.2141 RANDOM 15.93
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] -0.01 -0.47 -0.4 0.18
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 22.954 c_scangle_it 1.422 c_angle_deg 1.3262 c_scbond_it 0.939 c_mcangle_it 0.792 c_improper_angle_d 0.7353 c_mcbond_it 0.451 c_bond_d 0.0058 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 22.954 c_scangle_it 1.422 c_angle_deg 1.3262 c_scbond_it 0.939 c_mcangle_it 0.792 c_improper_angle_d 0.7353 c_mcbond_it 0.451 c_bond_d 0.0058 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_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7323 Nucleic Acid Atoms Solvent Atoms 533 Heterogen Atoms 51
Software Software Software Name Purpose CrystalClear data collection CNS refinement HKL-2000 data reduction SCALA data scaling CNS phasing