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Crystal structure of mouse phosphoglucose isomerase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1N8T PDB ENTRY 1N8T
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 294 1.9 M ammonium sulphate, 100 mM Tris-HCl, pH 8.5 , VAPOR DIFFUSION, HANGING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.3 41.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.2 α = 90 b = 116.1 β = 101.3 c = 73.1 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 mirrors 2001-07-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU300 1.54
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 1.6 49.7 99.5 0.075 0.075 5.4 5.4 148767 147857 24.4
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.6 1.66 96.4 0.422 0.422 1.5 5.9 14817
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1N8T 1.6 14.96 146126 146126 7322 98.9 0.213 0.213 0.211 0.212 0.246 0.2438 RANDOM 24.439
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] 0.02 0.02 0.01 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.587 r_scangle_it 2.709 r_scbond_it 1.692 r_angle_refined_deg 1.16 r_mcangle_it 1.001 r_mcbond_it 0.55 r_symmetry_vdw_refined 0.204 r_nbd_refined 0.196 r_xyhbond_nbd_refined 0.133 r_symmetry_hbond_refined 0.107
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.587 r_scangle_it 2.709 r_scbond_it 1.692 r_angle_refined_deg 1.16 r_mcangle_it 1.001 r_mcbond_it 0.55 r_symmetry_vdw_refined 0.204 r_nbd_refined 0.196 r_xyhbond_nbd_refined 0.133 r_symmetry_hbond_refined 0.107 r_chiral_restr 0.085 r_bond_refined_d 0.01 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_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 8814 Nucleic Acid Atoms Solvent Atoms 1017 Heterogen Atoms 112
Software Software Software Name Purpose REFMAC refinement CrystalClear data reduction d*TREK data scaling MOLREP phasing