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Co-enzyme Induced Conformational Changes in Bovine Eye Glyceraldehyde 3-Phosphate Dehydrogenase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1J0X
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7 277 20% PEG3350 and 0.2M succinate, pH 7.0, VAPOR DIFFUSION, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.58 52.34
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.752 α = 90 b = 126.205 β = 118.13 c = 83.228 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 CCD ADSC QUANTUM 315r 2011-11-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-C 0.97918 APS 24-ID-C
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 1.93 50 99.3 0.088 4.1 108672 -3
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 1J0X 1.93 46.86 101816 5368 97.99 0.19004 0.18779 0.1946 0.23352 0.2392 RANDOM 26.295
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] -1.15 0.28 0.64 0.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.039 r_dihedral_angle_4_deg 23.16 r_dihedral_angle_3_deg 14.665 r_dihedral_angle_1_deg 6.748 r_long_range_B_refined 5.285 r_long_range_B_other 5.278 r_scangle_other 4.403 r_scbond_it 2.946 r_scbond_other 2.942 r_mcangle_it 2.935
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.039 r_dihedral_angle_4_deg 23.16 r_dihedral_angle_3_deg 14.665 r_dihedral_angle_1_deg 6.748 r_long_range_B_refined 5.285 r_long_range_B_other 5.278 r_scangle_other 4.403 r_scbond_it 2.946 r_scbond_other 2.942 r_mcangle_it 2.935 r_mcangle_other 2.935 r_mcbond_it 2.207 r_mcbond_other 2.206 r_angle_refined_deg 1.905 r_angle_other_deg 0.881 r_chiral_restr 0.117 r_bond_refined_d 0.018 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10052 Nucleic Acid Atoms Solvent Atoms 304 Heterogen Atoms 132
Software Software Software Name Purpose ADSC data collection PHASER phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling