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His243Ala Escherichia coli Aminopeptidase P
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1WL9 PDB ENTRY 1WL9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.2 277 HANGING DROP VAPOUR DIFFUSION AT 4C. 2 UL 6 MG/ML APPRO PLUS 2 UL RESERVOIR SOLUTION: 28 % PEG 4K, 0.1 M TRIS PH 8.2. SOAKED IN RESERVOIR SOLUTION SUPPLEMENTED WITH 10% MPD AND 1 MM MNCL2 FOR 1 HR AT 4C PRIOR TO CRYOCOOLING.
Crystal Properties Matthews coefficient Solvent content 4.4 71.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 177.147 α = 90 b = 177.147 β = 90 c = 96.438 γ = 120
Symmetry Space Group P 64 2 2
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 MARRESEARCH OSMIC MIRRORS 2005-06-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200H
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 1.75 76.7 97.3 0.06 17.4 5 86631 6 21.28
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 1.75 1.84 97.9 0.29 3.4 3.5
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 (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1WL9 1.75 60.08 83997 2632 96.8 0.15 0.15 0.165 0.1961 RANDOM 21.82
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] -0.08 -0.04 -0.08 0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.013 r_dihedral_angle_4_deg 13.591 r_dihedral_angle_3_deg 10.95 r_sphericity_free 6.609 r_dihedral_angle_1_deg 5.83 r_scangle_it 5.202 r_scbond_it 3.611 r_mcangle_it 2.043 r_mcbond_it 1.855 r_angle_refined_deg 1.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.013 r_dihedral_angle_4_deg 13.591 r_dihedral_angle_3_deg 10.95 r_sphericity_free 6.609 r_dihedral_angle_1_deg 5.83 r_scangle_it 5.202 r_scbond_it 3.611 r_mcangle_it 2.043 r_mcbond_it 1.855 r_angle_refined_deg 1.16 r_angle_other_deg 0.787 r_mcbond_other 0.423 r_symmetry_vdw_other 0.297 r_symmetry_vdw_refined 0.227 r_nbd_refined 0.206 r_nbd_other 0.176 r_nbtor_refined 0.173 r_xyhbond_nbd_refined 0.119 r_symmetry_hbond_refined 0.119 r_nbtor_other 0.078 r_chiral_restr 0.07 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3495 Nucleic Acid Atoms Solvent Atoms 642 Heterogen Atoms 3
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALEPACK data scaling