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CcpA from G. sulfurreducens, G94K/K97Q/R100I variant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3HQ6 PDB ENTRY 3HQ6
Crystallization Crystal Properties Matthews coefficient Solvent content 2.61 52.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 99.299 α = 89.97 b = 99.353 β = 89.98 c = 78.225 γ = 90
Symmetry Space Group P 43 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray CCD MAR CCD 165 mm 2007-03-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X12 1.05 EMBL/DESY, HAMBURG X12
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.3 70 99.6 0.146 15 15.2 17841 2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 PDB ENTRY 3HQ6 2.31 70 16870 906 99.75 0.2129 0.20879 0.2073 0.29373 0.2922 RANDOM 39.489
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] 0.87 0.87 -1.75
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.626 r_dihedral_angle_3_deg 21.2 r_dihedral_angle_4_deg 20.764 r_dihedral_angle_1_deg 9.179 r_scangle_it 5.172 r_scbond_it 3.699 r_angle_refined_deg 2.783 r_mcangle_it 2.438 r_mcbond_it 1.513 r_metal_ion_refined 0.335
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.626 r_dihedral_angle_3_deg 21.2 r_dihedral_angle_4_deg 20.764 r_dihedral_angle_1_deg 9.179 r_scangle_it 5.172 r_scbond_it 3.699 r_angle_refined_deg 2.783 r_mcangle_it 2.438 r_mcbond_it 1.513 r_metal_ion_refined 0.335 r_nbtor_refined 0.32 r_nbd_refined 0.285 r_xyhbond_nbd_refined 0.25 r_symmetry_vdw_refined 0.23 r_chiral_restr 0.174 r_symmetry_hbond_refined 0.122 r_bond_refined_d 0.032 r_gen_planes_refined 0.012 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_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2287 Nucleic Acid Atoms Solvent Atoms 183 Heterogen Atoms 87
Software Software Software Name Purpose REFMAC refinement