☰ Navigation Tabs
Crystal structure of E. coli Se-MET protein YDDE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 293 12% MPEG 5000, 0.2 M SODIUM ACETATE, pH 5.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.6 51.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 80.035 α = 90 b = 56.529 β = 101.67 c = 148.742 γ = 90
Symmetry Space Group P 1 21 1
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 2002-03-11 M SAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 ESRF ID14-4
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 2.05 20 99.7 0.066 7.3 3.9 80627
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 2.05 2.1 100 0.364 1.7 3.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SAD THROUGHOUT 2.05 20 80286 1630 99.68 0.17203 0.17129 0.1918 0.20672 0.2176 RANDOM 23.184
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] 0.56 0.24 -0.9 0.44
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.188 r_scangle_it 3.394 r_scbond_it 2.031 r_mcangle_it 1.382 r_angle_refined_deg 1.2 r_angle_other_deg 0.762 r_mcbond_it 0.718 r_symmetry_vdw_other 0.256 r_nbd_other 0.242 r_nbd_refined 0.186
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.188 r_scangle_it 3.394 r_scbond_it 2.031 r_mcangle_it 1.382 r_angle_refined_deg 1.2 r_angle_other_deg 0.762 r_mcbond_it 0.718 r_symmetry_vdw_other 0.256 r_nbd_other 0.242 r_nbd_refined 0.186 r_xyhbond_nbd_refined 0.159 r_symmetry_vdw_refined 0.126 r_symmetry_hbond_refined 0.107 r_nbtor_other 0.081 r_chiral_restr 0.075 r_bond_refined_d 0.01 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_dihedral_angle_2_deg r_xyhbond_nbd_other r_symmetry_hbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9063 Nucleic Acid Atoms Solvent Atoms 620 Heterogen Atoms 19
Software Software Software Name Purpose DENZO data reduction SCALA data scaling SOLVE phasing RESOLVE model building REFMAC refinement CCP4 data scaling RESOLVE phasing