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The structure of rat cytosolic PEPCK mutant A467G in complex with oxalate and GTP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 hanging drop vapor diffusion 7.4 298 12-30% PEG 3350, 0.1M HEPES PH 7.4,10 MM MNCL2, 10 MM GTP, hanging drop vapor diffusion, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.22 44.54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.983 α = 90 b = 119.601 β = 106.87 c = 87.068 γ = 90
Symmetry Space Group P 1 21 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 2009-04-09 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.9 SSRL BL11-1
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 1.75 100 96.7 0.094 9.3 7.1 118295
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 1.75 1.81 94.9 0.74 6.9 11553
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 1.75 33.24 118250 5926 96.61 0.182 0.179 0.2004 0.228 0.2454 RANDOM 11.414
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] 0.28 0.18 -0.23 0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.962 r_dihedral_angle_4_deg 19.905 r_dihedral_angle_3_deg 14.481 r_dihedral_angle_1_deg 6.264 r_scangle_it 3.513 r_scbond_it 2.249 r_angle_refined_deg 1.526 r_mcangle_it 1.349 r_mcbond_it 0.796 r_chiral_restr 0.104
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.962 r_dihedral_angle_4_deg 19.905 r_dihedral_angle_3_deg 14.481 r_dihedral_angle_1_deg 6.264 r_scangle_it 3.513 r_scbond_it 2.249 r_angle_refined_deg 1.526 r_mcangle_it 1.349 r_mcbond_it 0.796 r_chiral_restr 0.104 r_bond_refined_d 0.015 r_gen_planes_refined 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9733 Nucleic Acid Atoms Solvent Atoms 913 Heterogen Atoms 146
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction Blu-Ice data collection HKL-2000 data reduction HKL-2000 data scaling