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A slow processing precursor penicillin acylase from Escherichia coli
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1PNK PDB ENTRY 1PNK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.2 50MM MOPS PH7.2, 18-20% PEG 5KME, 10MM CACL2, pH 7.20
Crystal Properties Matthews coefficient Solvent content 2.17 43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.71 α = 66.14 b = 64.27 β = 74.18 c = 72 γ = 74.23
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 120 IMAGE PLATE MARRESEARCH SEGMENTED MIRROR 1997-11-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 EMBL/DESY, HAMBURG X11
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 1.8 20 96.9 0.063 10.3 1.9 70642 12.2
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 1.8 1.86 89.1 0.216 3.16 1.5
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-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1PNK 1.8 20 72879 3562 96.9 0.149 0.158 0.197 RANDOM 15.1
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]
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 26.8 p_special_tor 15 p_staggered_tor 13.6 p_planar_tor 4 p_scangle_it 2.2 p_mcangle_it 1.67 p_scbond_it 1.5 p_mcbond_it 1.15 p_multtor_nbd 0.246 p_xyhbond_nbd 0.177
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 26.8 p_special_tor 15 p_staggered_tor 13.6 p_planar_tor 4 p_scangle_it 2.2 p_mcangle_it 1.67 p_scbond_it 1.5 p_mcbond_it 1.15 p_multtor_nbd 0.246 p_xyhbond_nbd 0.177 p_singtor_nbd 0.17 p_chiral_restr 0.113 p_bond_d 0.09 p_planar_d 0.029 p_angle_d 0.026 p_plane_restr 0.02 p_angle_deg p_hb_or_metal_coord p_xhyhbond_nbd p_orthonormal_tor
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6455 Nucleic Acid Atoms Solvent Atoms 1193 Heterogen Atoms 14
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing