☰ Navigation Tabs
CeuE (H227A, Y288F variant) a periplasmic protein from Campylobacter jejuni
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3ZKW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 9 298 =0.1M SPG, pH 9.0; 25% Peg1500.
Crystal Properties Matthews coefficient Solvent content 2.4 48.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.9 α = 82.23 b = 62.611 β = 76.96 c = 67.792 γ = 75.98
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 110 PIXEL DECTRIS PILATUS3 6M 2016-04-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.98 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 1.81 65.8 95.9 0.074 0.996 8.8 3.4 77003
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.81 1.85 96.2 0.779 0.599 1.6 3.3
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 3zkw 1.81 65.8 73272 3731 95.82 0.20147 0.19955 0.2065 0.23858 0.243 RANDOM 34.448
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] -0.02 -1.97 -0.43 -0.55 0.78 -0.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.504 r_dihedral_angle_3_deg 14.989 r_dihedral_angle_4_deg 14.21 r_long_range_B_other 6.447 r_long_range_B_refined 6.446 r_dihedral_angle_1_deg 6.428 r_scangle_other 5.282 r_mcangle_other 4.477 r_mcangle_it 4.476 r_scbond_it 3.674
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.504 r_dihedral_angle_3_deg 14.989 r_dihedral_angle_4_deg 14.21 r_long_range_B_other 6.447 r_long_range_B_refined 6.446 r_dihedral_angle_1_deg 6.428 r_scangle_other 5.282 r_mcangle_other 4.477 r_mcangle_it 4.476 r_scbond_it 3.674 r_scbond_other 3.674 r_mcbond_it 3.356 r_mcbond_other 3.354 r_angle_refined_deg 1.961 r_angle_other_deg 1.167 r_chiral_restr 0.123 r_bond_refined_d 0.019 r_gen_planes_refined 0.009 r_bond_other_d 0.005 r_gen_planes_other 0.002 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6295 Nucleic Acid Atoms Solvent Atoms 109 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement xia2 data reduction Aimless data scaling MOLREP phasing