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The structure of a putative malate/lactate dehydrogenase from E. coli.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 302 1.8M ammonium sulfate, 0.1M sodium acetate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 302K
Crystal Properties Matthews coefficient Solvent content 5.024303 75.518997
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 139.095 α = 90 b = 139.095 β = 90 c = 151.654 γ = 120
Symmetry Space Group P 32 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 CUSTOM-MADE 2003-07-01 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97923, 0.97937, 1.00314 APS 19-ID
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 35.5 96.1 88697 88697
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 2.15 2.23 72.8
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 2.15 35.5 84241 84241 4455 96.09 0.15902 0.15902 0.15757 0.1552 0.18622 0.1833 RANDOM 38.688
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] 1.81 0.91 1.81 -2.72
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.216 r_dihedral_angle_4_deg 19.743 r_dihedral_angle_3_deg 13.854 r_dihedral_angle_1_deg 5.843 r_scangle_it 3.949 r_scbond_it 2.647 r_angle_refined_deg 1.476 r_mcangle_it 1.42 r_mcbond_it 1.104 r_nbtor_refined 0.298
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.216 r_dihedral_angle_4_deg 19.743 r_dihedral_angle_3_deg 13.854 r_dihedral_angle_1_deg 5.843 r_scangle_it 3.949 r_scbond_it 2.647 r_angle_refined_deg 1.476 r_mcangle_it 1.42 r_mcbond_it 1.104 r_nbtor_refined 0.298 r_nbd_refined 0.204 r_symmetry_vdw_refined 0.192 r_symmetry_hbond_refined 0.189 r_xyhbond_nbd_refined 0.139 r_chiral_restr 0.093 r_bond_refined_d 0.014 r_gen_planes_refined 0.005 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 5438 Nucleic Acid Atoms Solvent Atoms 877 Heterogen Atoms 184
Software Software Software Name Purpose REFMAC refinement SBC-Collect data collection HKL-2000 data scaling HKL-3000 phasing SHELX phasing MLPHARE phasing DM phasing RESOLVE phasing ARP/wARP model building O model building Coot model building