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Protein crystallization and microgravity: glucose isomerase crystals grown during the PCDF-PROTEIN mission
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2GLK PDB ENTRY 2GLK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 28.7 MG/ML PROTEIN, 1.4 MG/ML PROTEIN COVALENTLY LABELED WITH BIS(2,2'-BIPYRIDINE)-4,4'-DICARBOXY BIPYRIDINE-RUTHENIUM DI(N-SUCCINIMIDYL ESTER) BIS(HEXAFLUOROPHOSPHATE), 0.9M AMMONIUM SULPHATE, 100MM HEPES PH 7.0
Crystal Properties Matthews coefficient Solvent content 2.7 54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 92.53 α = 90 b = 98.07 β = 90 c = 102.05 γ = 90
Symmetry Space Group I 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 CCD ADSC CCD MIRRORS 2009-09-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM16 ESRF BM16
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 1.2 1.23 99 0.06 26 5 280608
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 1.2 1.23 99 0.16 7 3.4
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 2GLK 1.2 70.77 136929 7247 99.97 0.11089 0.10998 0.1166 0.12788 0.1338 RANDOM 10.016
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] -0.05 0.16 -0.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.566 r_dihedral_angle_4_deg 14.04 r_sphericity_free 13.843 r_dihedral_angle_3_deg 10.485 r_sphericity_bonded 6.826 r_dihedral_angle_1_deg 5.62 r_scangle_it 5.404 r_scbond_it 4.165 r_mcangle_it 3.082 r_rigid_bond_restr 2.561
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.566 r_dihedral_angle_4_deg 14.04 r_sphericity_free 13.843 r_dihedral_angle_3_deg 10.485 r_sphericity_bonded 6.826 r_dihedral_angle_1_deg 5.62 r_scangle_it 5.404 r_scbond_it 4.165 r_mcangle_it 3.082 r_rigid_bond_restr 2.561 r_mcbond_it 2.259 r_angle_refined_deg 2.078 r_chiral_restr 0.125 r_bond_refined_d 0.025 r_gen_planes_refined 0.016 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3016 Nucleic Acid Atoms Solvent Atoms 449 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling