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Crystal structure of ALDO/KETO reductase from brucella melitensis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1MZR pdb entry 1mzr, residues 1-220, modified with CCP4 program CHAINSAW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 290 EBS JCSG+ SCREEN, D9: 0.17M AMMONIUM SULPHATE, 25.5% PEG 4000, 15% GLYCEROL; BRABA.00019.A AT 73MG/ML, PH 8.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 290K
Crystal Properties Matthews coefficient Solvent content 1.87 34.28
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 81.18 α = 90 b = 50.86 β = 94.47 c = 115.35 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 CCD RIGAKU SATURN 944+ Rigaku/Osmic VariMax HF 2010-04-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E+ SUPERBRIGHT 1.5418
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 50 99.5 0.066 14.65 4.7 87518 87040 -3 23.54
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) 1.8 1.85 98.9 0.439 2.5 2.9 6314
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 (All) 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 pdb entry 1mzr, residues 1-220, modified with CCP4 program CHAINSAW 1.8 46.51 87518 86857 4353 99.3 0.182 0.182 0.179 0.1857 0.227 0.23 RANDOM 13.76
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] -0.1 0.4 -0.49 0.65
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.889 r_dihedral_angle_4_deg 16.649 r_dihedral_angle_3_deg 13.08 r_dihedral_angle_1_deg 5.379 r_scangle_it 3.419 r_scbond_it 2.177 r_angle_refined_deg 1.465 r_mcangle_it 1.332 r_angle_other_deg 0.938 r_mcbond_it 0.78
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.889 r_dihedral_angle_4_deg 16.649 r_dihedral_angle_3_deg 13.08 r_dihedral_angle_1_deg 5.379 r_scangle_it 3.419 r_scbond_it 2.177 r_angle_refined_deg 1.465 r_mcangle_it 1.332 r_angle_other_deg 0.938 r_mcbond_it 0.78 r_mcbond_other 0.231 r_chiral_restr 0.095 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8049 Nucleic Acid Atoms Solvent Atoms 751 Heterogen Atoms 40
Software Software Software Name Purpose StructureStudio data collection PHASER phasing REFMAC refinement XDS data reduction XSCALE data scaling