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Periplasmic Binding Protein CeuE in complex with ferric 4-LICAM
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2CHU PDB ENTRY 2CHU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 0.2M SODIUM NITRATE, 0.1M BIS TRIS PROPANE PH 7.5, 20% PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.2 43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.42 α = 90 b = 66.89 β = 90 c = 67.3 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 6M 2011-12-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I24 Diamond I24
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 1.61 44.96 99.5 0.05 18.3 5.7 204289 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 1.61 1.65 94.9 0.42 2.2 3
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 PDB ENTRY 2CHU 1.6 33.65 34006 1773 97.75 0.2666 0.26422 0.2649 0.31242 0.3063 RANDOM 20.566
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] -7.83 1.39 6.44
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.219 r_dihedral_angle_3_deg 19.736 r_dihedral_angle_4_deg 8.236 r_dihedral_angle_1_deg 7.343 r_angle_refined_deg 2.37 r_mcangle_it 2.157 r_mcbond_it 1.549 r_mcbond_other 1.549 r_scbond_it 1.459 r_angle_other_deg 1.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.219 r_dihedral_angle_3_deg 19.736 r_dihedral_angle_4_deg 8.236 r_dihedral_angle_1_deg 7.343 r_angle_refined_deg 2.37 r_mcangle_it 2.157 r_mcbond_it 1.549 r_mcbond_other 1.549 r_scbond_it 1.459 r_angle_other_deg 1.07 r_chiral_restr 0.132 r_bond_refined_d 0.02 r_gen_planes_refined 0.012 r_gen_planes_other 0.003 r_bond_other_d 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_mcangle_other r_scbond_other r_scangle_it 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 2243 Nucleic Acid Atoms Solvent Atoms 78 Heterogen Atoms 27
Software Software Software Name Purpose REFMAC refinement xia2 data reduction MOLREP phasing