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proline racemase in complex with 2 molecules of pyrrole-2-carboxylic acid (holo form)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other MODEL OF THE SAME PROTEIN OBTAINED BY SAD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.6 15% PEG 4000,100MM NH4ACETATE 50MM NA3CITRATE.2H2O,PH5.6, pH 5.60
Crystal Properties Matthews coefficient Solvent content 2.5 50.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 131.153 α = 90 b = 91.209 β = 126.52 c = 85.983 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 110 CCD ADSC CCD TOROIDAL MIRROR M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 ESRF ID29
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 2.1 69.2 98.8 0.07 15.4 3.7 46967 2 23.92
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 2.1 2.21 94.1 0.13 7.7 3.4
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT MODEL OF THE SAME PROTEIN OBTAINED BY SAD 2.1 30 46958 2331 98.8 0.15 0.148 0.1605 0.193 0.2002 RANDOM 22.6
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] 1.425 0.727 -0.744 0.183
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.855 r_dihedral_angle_3_deg 15.406 r_dihedral_angle_4_deg 13.61 r_dihedral_angle_1_deg 6.9 r_scangle_it 4.239 r_scbond_it 3.014 r_mcbond_it 1.778 r_angle_refined_deg 1.72 r_mcangle_it 1.696 r_angle_other_deg 0.886
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.855 r_dihedral_angle_3_deg 15.406 r_dihedral_angle_4_deg 13.61 r_dihedral_angle_1_deg 6.9 r_scangle_it 4.239 r_scbond_it 3.014 r_mcbond_it 1.778 r_angle_refined_deg 1.72 r_mcangle_it 1.696 r_angle_other_deg 0.886 r_symmetry_vdw_refined 0.346 r_symmetry_vdw_other 0.289 r_symmetry_hbond_refined 0.227 r_nbd_other 0.198 r_nbd_refined 0.195 r_nbtor_refined 0.175 r_xyhbond_nbd_refined 0.144 r_chiral_restr 0.108 r_nbtor_other 0.091 r_bond_refined_d 0.019 r_gen_planes_refined 0.007 r_bond_other_d 0.006 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_mcbond_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_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5374 Nucleic Acid Atoms Solvent Atoms 358 Heterogen Atoms 16
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling AMoRE phasing