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CeuE (H227L 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 8.5 298 0.2M NaBr; 0.1M BTP, pH 8.5; 20% Peg 3350
Crystal Properties Matthews coefficient Solvent content 2.37 48.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.921 α = 82.21 b = 62.56 β = 76.99 c = 67.789 γ = 76.18
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 PILATUS3 6M 2016-04-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.976 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 1.52 65.52 95.4 0.06 0.996 9.5 3.5 129426
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 1.52 1.55 94.6 0.486 0.71 2.3 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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 3ZKW 1.52 65.52 123093 6332 95.33 0.18654 0.18483 0.1937 0.22129 0.2286 RANDOM 25.672
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] -0.36 -1.25 -0.08 0.3 1.03 -0.48
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.493 r_dihedral_angle_4_deg 21.427 r_dihedral_angle_3_deg 13.795 r_long_range_B_refined 6.735 r_long_range_B_other 6.731 r_dihedral_angle_1_deg 6.268 r_scangle_other 4.975 r_scbond_it 3.633 r_scbond_other 3.633 r_mcangle_other 3.501
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.493 r_dihedral_angle_4_deg 21.427 r_dihedral_angle_3_deg 13.795 r_long_range_B_refined 6.735 r_long_range_B_other 6.731 r_dihedral_angle_1_deg 6.268 r_scangle_other 4.975 r_scbond_it 3.633 r_scbond_other 3.633 r_mcangle_other 3.501 r_mcangle_it 3.498 r_mcbond_it 2.711 r_mcbond_other 2.703 r_angle_refined_deg 2.338 r_angle_other_deg 1.251 r_chiral_restr 0.169 r_bond_refined_d 0.024 r_gen_planes_refined 0.011 r_bond_other_d 0.004 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 6448 Nucleic Acid Atoms Solvent Atoms 301 Heterogen Atoms 6
Software Software Software Name Purpose REFMAC refinement Aimless data scaling MOLREP phasing XDS data reduction