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Crystal structure of the escherichia coli nrfa mutant Q263E
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2RDZ PDB ENTRY 2RDZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 277 100 mM HEPES pH 7.5, 20 % PEG 10 K, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.8 56.03
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.292 α = 90 b = 91.201 β = 90 c = 295.486 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 315 2006-07-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.992 ESRF ID23-1
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 2.04 147.743 97.1 0.096 0.096 3.6 3.7 137863 137863
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) 2.04 2.15 92.9 0.327 0.327 0.9 3.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 2RDZ 2.04 79.31 137768 130828 6940 96.83 0.17411 0.17131 0.1717 0.22642 0.226 RANDOM 22.051
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] 0.04 -0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.884 r_dihedral_angle_3_deg 15.325 r_dihedral_angle_4_deg 14.421 r_dihedral_angle_1_deg 5.905 r_scangle_it 3.485 r_scbond_it 2.41 r_angle_refined_deg 1.499 r_mcangle_it 1.342 r_mcbond_it 1.042 r_nbtor_refined 0.293
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.884 r_dihedral_angle_3_deg 15.325 r_dihedral_angle_4_deg 14.421 r_dihedral_angle_1_deg 5.905 r_scangle_it 3.485 r_scbond_it 2.41 r_angle_refined_deg 1.499 r_mcangle_it 1.342 r_mcbond_it 1.042 r_nbtor_refined 0.293 r_nbd_refined 0.209 r_symmetry_hbond_refined 0.201 r_symmetry_vdw_refined 0.177 r_xyhbond_nbd_refined 0.155 r_chiral_restr 0.1 r_metal_ion_refined 0.073 r_bond_refined_d 0.018 r_gen_planes_refined 0.009 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13987 Nucleic Acid Atoms Solvent Atoms 1782 Heterogen Atoms 928
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction ADSC data collection