☰ Navigation Tabs
Crystal structure of oxaloacetate and NADH bound MDH2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.2 288 0.1 M Na2HPO4:citric acid, 40% (v/v) polyethylene glycol 300, 10% DMSO
Crystal Properties Matthews coefficient Solvent content 2.48 50.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.989 α = 90 b = 152.191 β = 90 c = 155.869 γ = 90
Symmetry Space Group P 21 21 21
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 270 2014-09-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 7A (6B, 6C1) 0.97933 PAL/PLS 7A (6B, 6C1)
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 2.5 28.35 99 47.8 12.8 47440
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 THROUGHOUT 2.5 28.35 47440 2541 98.91 0.21373 0.21156 0.2157 0.25488 0.2538 RANDOM 45.593
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] -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.659 r_dihedral_angle_3_deg 14.752 r_dihedral_angle_4_deg 10.156 r_dihedral_angle_1_deg 5.258 r_long_range_B_refined 4.513 r_long_range_B_other 4.512 r_scangle_other 2.637 r_mcangle_it 2.452 r_mcangle_other 2.451 r_scbond_it 1.535
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.659 r_dihedral_angle_3_deg 14.752 r_dihedral_angle_4_deg 10.156 r_dihedral_angle_1_deg 5.258 r_long_range_B_refined 4.513 r_long_range_B_other 4.512 r_scangle_other 2.637 r_mcangle_it 2.452 r_mcangle_other 2.451 r_scbond_it 1.535 r_scbond_other 1.535 r_mcbond_it 1.484 r_mcbond_other 1.484 r_angle_refined_deg 1.066 r_angle_other_deg 0.758 r_chiral_restr 0.053 r_bond_refined_d 0.006 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9248 Nucleic Acid Atoms Solvent Atoms 25 Heterogen Atoms 212
Software Software Software Name Purpose REFMAC refinement