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The Structure of rat cytosolic PEPCK in complex with phosphonoformate
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.4 298 12-30% PEG 3350, 0.1M HEPES,10 MM MNCL2, pH 7.4, temperature 298K, VAPOR DIFFUSION, HANGING DROP
Crystal Properties Matthews coefficient Solvent content 2.22 44.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.251 α = 90 b = 119.47 β = 107.06 c = 86.87 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++ BLUE OSMIC Confocal MIRRORS 2007-06-16 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RUH3R
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2 100 98.2 0.715 0.516 5.7 80055
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.07 92.8
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 30.06 80020 4000 98.18 0.198 0.195 0.1948 0.249 0.2452 RANDOM 19.162
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] -0.04 0.02 0.03 0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.937 r_dihedral_angle_4_deg 15.206 r_dihedral_angle_3_deg 14.79 r_dihedral_angle_1_deg 5.642 r_scangle_it 1.636 r_angle_refined_deg 1.117 r_scbond_it 0.992 r_mcangle_it 0.704 r_mcbond_it 0.385 r_nbtor_refined 0.302
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.937 r_dihedral_angle_4_deg 15.206 r_dihedral_angle_3_deg 14.79 r_dihedral_angle_1_deg 5.642 r_scangle_it 1.636 r_angle_refined_deg 1.117 r_scbond_it 0.992 r_mcangle_it 0.704 r_mcbond_it 0.385 r_nbtor_refined 0.302 r_nbd_refined 0.184 r_symmetry_vdw_refined 0.171 r_symmetry_hbond_refined 0.164 r_metal_ion_refined 0.157 r_xyhbond_nbd_refined 0.122 r_chiral_restr 0.076 r_bond_refined_d 0.008 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9691 Nucleic Acid Atoms Solvent Atoms 839 Heterogen Atoms 31
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection