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Crystal structure of Enterococcus faecalis AhpC
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4O5R
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 291 Tris HCl pH 8.5, Magnesium Chloride, PEG 400 (30%)
Crystal Properties Matthews coefficient Solvent content 2.75 55.22
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 103.191 α = 90 b = 124.674 β = 113.66 c = 97.788 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 100 CCD ADSC QUANTUM 315 Mirrors 2015-10-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSRRC BEAMLINE BL13B1 1 NSRRC BL13B1
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 2.85 30 99.1 0.09 0.992 8.6 3.2 25934 56.23
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 2.85 2.95 95.4 0.39 0.765 1.6 2.2
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 4O5R 2.87 30 24376 1297 98.31 0.21001 0.20774 0.2102 0.25171 0.2612 RANDOM 60.494
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] 0.75 -1.14 4.81 -3.29
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.715 r_dihedral_angle_3_deg 13.438 r_dihedral_angle_4_deg 10.453 r_dihedral_angle_1_deg 4.702 r_long_range_B_refined 3.68 r_long_range_B_other 3.665 r_mcangle_it 2.09 r_mcangle_other 2.089 r_scangle_other 1.497 r_mcbond_it 1.13
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.715 r_dihedral_angle_3_deg 13.438 r_dihedral_angle_4_deg 10.453 r_dihedral_angle_1_deg 4.702 r_long_range_B_refined 3.68 r_long_range_B_other 3.665 r_mcangle_it 2.09 r_mcangle_other 2.089 r_scangle_other 1.497 r_mcbond_it 1.13 r_mcbond_other 1.129 r_scbond_it 0.808 r_scbond_other 0.808 r_angle_refined_deg 0.786 r_angle_other_deg 0.649 r_chiral_restr 0.049 r_bond_refined_d 0.004 r_gen_planes_refined 0.003 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6655 Nucleic Acid Atoms Solvent Atoms 135 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing