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Malate dehydrogenase open conformation
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 291 100 mM ADA, 0.2 M sodium acetate, 30% PEG MME 5000, 5% glycerol, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.42 49.17
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 146.026 α = 90 b = 51.972 β = 102.23 c = 168.98 γ = 90
Symmetry Space Group C 1 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 MARMOSAIC 325 mm CCD M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 1.00 SSRL BL9-2
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 1.45 60.971 98.4 0.056 2.8 215865
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.45 1.49 94.8 0.417 1.5 216241
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 MOLECULAR REPLACEMENT THROUGHOUT 1.45 60.97 215852 21468 98.2 0.188 0.186 0.1834 0.214 0.2112 RANDOM 17.652
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.441 r_dihedral_angle_4_deg 21.454 r_dihedral_angle_3_deg 12.961 r_scangle_it 5.613 r_dihedral_angle_1_deg 5.29 r_scbond_it 3.433 r_mcangle_it 2.077 r_angle_refined_deg 2.065 r_mcbond_it 1.315 r_chiral_restr 0.144
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.441 r_dihedral_angle_4_deg 21.454 r_dihedral_angle_3_deg 12.961 r_scangle_it 5.613 r_dihedral_angle_1_deg 5.29 r_scbond_it 3.433 r_mcangle_it 2.077 r_angle_refined_deg 2.065 r_mcbond_it 1.315 r_chiral_restr 0.144 r_bond_refined_d 0.024 r_gen_planes_refined 0.012
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9464 Nucleic Acid Atoms Solvent Atoms 525 Heterogen Atoms
Software Software Software Name Purpose SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction Blu-Ice data collection MOSFLM data reduction BALBES phasing