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Crystal structure of GidA from E. coli
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 293 100mM tri-Sodium Citrate pH 5.5, 550mM Ammoniumsulfate, 3% Isopropanol, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.72 54.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 197.6 α = 90 b = 197.6 β = 90 c = 69.16 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 315 2005-11-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 1.0438 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 2.9 20 99.3 0.054 0.044 22.85 9.4 18054 18054 3 72.7
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) 2.9 3 99.9 0.267 0.388 4.9 9.6 16289
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (I) 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 MIR THROUGHOUT 2.9 19.96 3 18013 17093 920 99.77 0.24897 0.24568 0.2435 0.31349 0.3145 RANDOM 88.458
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] -1.06 -0.53 -1.06 1.58
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.875 r_dihedral_angle_3_deg 20.951 r_dihedral_angle_4_deg 17.867 r_dihedral_angle_1_deg 7.077 r_scangle_it 1.608 r_angle_refined_deg 1.39 r_mcangle_it 0.96 r_scbond_it 0.939 r_mcbond_it 0.53 r_nbtor_refined 0.312
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.875 r_dihedral_angle_3_deg 20.951 r_dihedral_angle_4_deg 17.867 r_dihedral_angle_1_deg 7.077 r_scangle_it 1.608 r_angle_refined_deg 1.39 r_mcangle_it 0.96 r_scbond_it 0.939 r_mcbond_it 0.53 r_nbtor_refined 0.312 r_nbd_refined 0.247 r_symmetry_hbond_refined 0.204 r_symmetry_vdw_refined 0.191 r_xyhbond_nbd_refined 0.152 r_chiral_restr 0.098 r_bond_refined_d 0.01 r_gen_planes_refined 0.003 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_refined 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 3790 Nucleic Acid Atoms Solvent Atoms 5 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement