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N-terminal GAF domain of transcriptional pleiotropic repressor CodY.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 291 PEG 5000, calcium acetate, isoleucine, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.2 44.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.696 α = 90 b = 86.081 β = 90 c = 54.819 γ = 90
Symmetry Space Group P 21 21 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 MARRESEARCH Rh coated collimating mirrors 2005-03-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SRS BEAMLINE PX10.1 0.98000 SRS PX10.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.7 50 88.6 0.061 20.2 3.6 16841 16841
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.7 1.73 29.2 0.27 1.7 1.9 275
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 (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 1.8 20 14653 14653 775 100 0.1564 0.1564 0.15351 0.21234 0.2383 RANDOM 31.063
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] 0.1 -0.06 -0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.178 r_dihedral_angle_3_deg 14.704 r_dihedral_angle_4_deg 12.726 r_scangle_it 9.854 r_scbond_it 7.643 r_dihedral_angle_1_deg 5.683 r_mcangle_it 5.362 r_mcbond_it 4.426 r_mcbond_other 2.433 r_angle_refined_deg 1.341
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.178 r_dihedral_angle_3_deg 14.704 r_dihedral_angle_4_deg 12.726 r_scangle_it 9.854 r_scbond_it 7.643 r_dihedral_angle_1_deg 5.683 r_mcangle_it 5.362 r_mcbond_it 4.426 r_mcbond_other 2.433 r_angle_refined_deg 1.341 r_angle_other_deg 0.807 r_symmetry_vdw_other 0.314 r_nbd_refined 0.218 r_symmetry_hbond_refined 0.21 r_nbd_other 0.181 r_xyhbond_nbd_refined 0.181 r_symmetry_vdw_refined 0.176 r_nbtor_refined 0.173 r_nbtor_other 0.083 r_chiral_restr 0.076 r_xyhbond_nbd_other 0.026 r_bond_refined_d 0.013 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1248 Nucleic Acid Atoms Solvent Atoms 129 Heterogen Atoms 9
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling HKL2Map phasing