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Crystal structure of the bef3-activated receiver domain of redox response regulator arca
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1XHE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 277 Ammonium Acetate, MPD, Sodium Acetate, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.96 68.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.169 α = 90 b = 86.169 β = 90 c = 213.082 γ = 120
Symmetry Space Group P 65 2 2
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 2004-02-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X4A 0.97176 NSLS X4A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.15 30 100 8.5 26318 26280 -3 15.1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.15 2.23 100 3.7 6.8 2529
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 2.152 30 26260 26206 2641 99.89 0.18978 0.18716 0.1888 0.21219 0.2134 RANDOM 29.168
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] 1.09 0.55 1.09 -1.64
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.067 r_scangle_it 2.9 r_mcangle_it 2.438 r_scbond_it 1.925 r_angle_refined_deg 1.445 r_mcbond_it 1.417 r_nbd_refined 0.209 r_symmetry_hbond_refined 0.207 r_symmetry_vdw_refined 0.202 r_xyhbond_nbd_refined 0.186
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.067 r_scangle_it 2.9 r_mcangle_it 2.438 r_scbond_it 1.925 r_angle_refined_deg 1.445 r_mcbond_it 1.417 r_nbd_refined 0.209 r_symmetry_hbond_refined 0.207 r_symmetry_vdw_refined 0.202 r_xyhbond_nbd_refined 0.186 r_metal_ion_refined 0.123 r_chiral_restr 0.101 r_bond_refined_d 0.017 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1923 Nucleic Acid Atoms Solvent Atoms 117 Heterogen Atoms 22
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement