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The crystal structure of ribD from Escherichia coli
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 In 500uL reservoir: 0.1M MES, 3% (v/v) 1,6 Hexandiol, 2+2uL drops , pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.87 68.24
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 172.6 α = 90 b = 172.6 β = 90 c = 76.38 γ = 120
Symmetry Space Group P 31 2 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 2004-03-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 0.934 ESRF ID14-1
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 2.6 28.25 86.8 40482 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.6 2.7 100
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 (All) 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 2.6 28.25 40426 2010 99.96 0.24626 0.24626 0.24422 0.237 0.28544 0.2712 RANDOM 87.154
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] 0.34 0.17 0.34 -0.51
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.282 r_dihedral_angle_3_deg 19.913 r_dihedral_angle_4_deg 19.057 r_dihedral_angle_1_deg 6.517 r_scangle_it 2.113 r_angle_refined_deg 1.327 r_scbond_it 1.323 r_mcangle_it 0.882 r_mcbond_it 0.534 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.282 r_dihedral_angle_3_deg 19.913 r_dihedral_angle_4_deg 19.057 r_dihedral_angle_1_deg 6.517 r_scangle_it 2.113 r_angle_refined_deg 1.327 r_scbond_it 1.323 r_mcangle_it 0.882 r_mcbond_it 0.534 r_nbtor_refined 0.306 r_nbd_refined 0.239 r_symmetry_vdw_refined 0.236 r_xyhbond_nbd_refined 0.208 r_chiral_restr 0.088 r_symmetry_hbond_refined 0.056 r_bond_refined_d 0.009 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5465 Nucleic Acid Atoms Solvent Atoms 65 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling SOLVE phasing