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DpIDH-NADP. The complex structures of Isocitrate dehydrogenase from Clostridium thermocellum and Desulfotalea psychrophila, support a new active site locking mechanism
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP HANGING DROP METHOD. RESERVOIR SOLUTIONS WITH 100 MM TRIS/HCL BUFFER AT PH 7.4, 1.7-1.9 M AMMONIUM SULFATE, 2% PEG 400 AND 60 MM MAGNESIUM SULFATE. PROTEIN SOLUTION: 20 MG/ML DPIDH, 10 MM NADP AND 10 MM DL-ISOCITRATE.
Crystal Properties Matthews coefficient Solvent content 2.33 47.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.64 α = 90 b = 98.91 β = 103.94 c = 71.89 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 IMAGE PLATE MAR scanner 345 mm plate M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM1A ESRF BM1A
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 1.93 40 98.1 0.09 10.7 3.8 30844 17.9
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 1.93 2.03 98.1 0.41 2.7 3.6
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 1.93 20 29252 1563 98.13 0.17745 0.1749 0.1757 0.22542 0.2259 RANDOM 19.858
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] 0.32 0.52 0.05 -0.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.956 r_dihedral_angle_4_deg 17.199 r_dihedral_angle_3_deg 14.282 r_dihedral_angle_1_deg 6.189 r_scangle_it 2.495 r_scbond_it 1.715 r_angle_refined_deg 1.406 r_mcangle_it 1.09 r_mcbond_it 0.7 r_nbtor_refined 0.302
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.956 r_dihedral_angle_4_deg 17.199 r_dihedral_angle_3_deg 14.282 r_dihedral_angle_1_deg 6.189 r_scangle_it 2.495 r_scbond_it 1.715 r_angle_refined_deg 1.406 r_mcangle_it 1.09 r_mcbond_it 0.7 r_nbtor_refined 0.302 r_symmetry_vdw_refined 0.223 r_nbd_refined 0.203 r_symmetry_hbond_refined 0.161 r_xyhbond_nbd_refined 0.149 r_chiral_restr 0.099 r_bond_refined_d 0.012 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3180 Nucleic Acid Atoms Solvent Atoms 227 Heterogen Atoms 62
Software Software Software Name Purpose REFMAC refinement