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Crystal structure of human Glucose 6-phosphate Dehydrogenase mutant (A277C) complexed with G6P
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2BH9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 9 291 100 mM Tris-HCl pH 9, 200 mM MgCl2, 13% PEG 4000 and 20% glycerol
Crystal Properties Matthews coefficient Solvent content 2.53 51.38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.099 α = 90 b = 177.817 β = 90 c = 216.47 γ = 90
Symmetry Space Group F 2 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 2M-F 2014-07-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA 0.97643 SLS X06DA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) 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 2.65 46.23 100 0.154 0.05 0.998 17.2 9.2 16889
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 2.65 2.78 100 1.532 1.7 8.8
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 2BH9 2.65 46.23 16047 839 99.95 0.19101 0.18875 0.1928 0.23368 0.2294 RANDOM 58.671
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] 2.07 0.24 -2.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.64 r_dihedral_angle_3_deg 20.132 r_dihedral_angle_4_deg 18.493 r_long_range_B_refined 10.41 r_long_range_B_other 10.41 r_scangle_other 6.688 r_dihedral_angle_1_deg 5.903 r_mcangle_it 5.818 r_mcangle_other 5.817 r_scbond_it 4.273
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.64 r_dihedral_angle_3_deg 20.132 r_dihedral_angle_4_deg 18.493 r_long_range_B_refined 10.41 r_long_range_B_other 10.41 r_scangle_other 6.688 r_dihedral_angle_1_deg 5.903 r_mcangle_it 5.818 r_mcangle_other 5.817 r_scbond_it 4.273 r_scbond_other 4.271 r_mcbond_it 3.816 r_mcbond_other 3.815 r_angle_other_deg 3.595 r_angle_refined_deg 1.644 r_chiral_restr 0.107 r_bond_refined_d 0.015 r_gen_planes_other 0.008 r_gen_planes_refined 0.007 r_bond_other_d r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3862 Nucleic Acid Atoms Solvent Atoms 20 Heterogen Atoms 22
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing