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Crystal structure of the N-terminal domain of AhrC
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1F9N pdb entry 1F9N, N-terminal domain of AhrC, chain A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 277 24% PEG 8000, 0.1M sodium cacodylate, 0.1M sodium acetate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 1.84 33.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 25.108 α = 90 b = 32.9 β = 90 c = 66.226 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 CCD ADSC QUANTUM 4 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 0.939 ESRF ID14-4
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 19.96 89.4 0.094 0.094 12.8 4.2 26874 5.4
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.05 70.6 0.216 0.216 2.8 2.4 7397
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 1F9N, N-terminal domain of AhrC, chain A 1 19.96 23686 2643 98.07 0.139 0.137 0.1379 0.16 0.1619 RANDOM 8.151
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] 0.21 -0.1 -0.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 48.789 r_dihedral_angle_4_deg 11.769 r_dihedral_angle_3_deg 10.581 r_sphericity_free 8.236 r_dihedral_angle_1_deg 5.892 r_scangle_it 3.527 r_sphericity_bonded 3.332 r_scbond_it 2.819 r_mcangle_it 2.37 r_mcbond_it 1.724
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 48.789 r_dihedral_angle_4_deg 11.769 r_dihedral_angle_3_deg 10.581 r_sphericity_free 8.236 r_dihedral_angle_1_deg 5.892 r_scangle_it 3.527 r_sphericity_bonded 3.332 r_scbond_it 2.819 r_mcangle_it 2.37 r_mcbond_it 1.724 r_angle_refined_deg 1.595 r_rigid_bond_restr 1.305 r_angle_other_deg 0.863 r_mcbond_other 0.692 r_symmetry_vdw_other 0.344 r_nbd_refined 0.222 r_nbd_other 0.194 r_nbtor_refined 0.175 r_symmetry_vdw_refined 0.14 r_chiral_restr 0.11 r_symmetry_hbond_refined 0.106 r_xyhbond_nbd_refined 0.096 r_nbtor_other 0.09 r_bond_refined_d 0.016 r_gen_planes_refined 0.009 r_bond_other_d 0.007 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1013 Nucleic Acid Atoms Solvent Atoms 87 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction ADSC data collection MOSFLM data reduction SCALA data scaling AMoRE phasing