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The structure of rat cytosolic PEPCK mutant A467G in complex with phosphoglycolate and GDP
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 GDP, hanging drop vapor diffusion, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.22 44.47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.078 α = 90 b = 119.52 β = 107.15 c = 87.018 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 IMAGE PLATE RIGAKU RAXIS IV++ 2009-09-15 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RUH2R 1.54
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 2.1 100 97.2 0.163 6.7 7 68897
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 2.1 2.18 80.3 0.735 4.9 5695
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 2.1 35.93 68845 3483 96.84 0.193 0.19 0.2048 0.247 0.2601 RANDOM 12.932
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] -0.14 0.02 0.08 0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.359 r_dihedral_angle_4_deg 19.993 r_dihedral_angle_3_deg 15.279 r_dihedral_angle_1_deg 6.572 r_scangle_it 2.436 r_scbond_it 1.645 r_angle_refined_deg 1.484 r_mcangle_it 0.85 r_mcbond_it 0.508 r_chiral_restr 0.097
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.359 r_dihedral_angle_4_deg 19.993 r_dihedral_angle_3_deg 15.279 r_dihedral_angle_1_deg 6.572 r_scangle_it 2.436 r_scbond_it 1.645 r_angle_refined_deg 1.484 r_mcangle_it 0.85 r_mcbond_it 0.508 r_chiral_restr 0.097 r_bond_refined_d 0.014 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9571 Nucleic Acid Atoms Solvent Atoms 668 Heterogen Atoms 99
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection HKL-2000 data reduction HKL-2000 data scaling