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Carboxypeptidase B in complex with DD2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ZG7 PDB ENTRY 1ZG7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 296 100mM sodium cacodylate (pH 5.3-6.8), 100mM zinc acetate, 5-15% (w/v) PEG 8000, VAPOR DIFFUSION, HANGING DROP, temperature 296K
Crystal Properties Matthews coefficient Solvent content 2.27 45.84
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.314 α = 90 b = 79.314 β = 90 c = 100.342 γ = 90
Symmetry Space Group P 41 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 86 IMAGE PLATE RIGAKU RAXIS II 2009-11-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.541865
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.15 15 99.5 17871
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.15 2.23 99.9
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-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1ZG7 2.154 15 17868 1786 100 0.2067 0.2028 0.2777 0.2725 RANDOM 18.2892
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] 2.319 2.319 -4.638
RMS Deviations Key Refinement Restraint Deviation c_scangle_it 2.289 c_scbond_it 1.728 c_mcangle_it 1.545 c_mcbond_it 1.076
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2436 Nucleic Acid Atoms Solvent Atoms 223 Heterogen Atoms 20
Software Software Software Name Purpose d*TREK data reduction CNS refinement PDB_EXTRACT data extraction RAPID-AUTO data collection RAPID-AUTO data reduction d*TREK data scaling CNS phasing