☰ Navigation Tabs
Crystal Structure of C150A+H177A mutant of Glyceraldehyde-3-phosphate-dehydrogenase1 from Escherichia coli at 2.0 Angstrom resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7C5F
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.3 293 100mM sodium Cacodylate pH 6.3, 20%(w/v) PEG 1000, 200mM MgCl2
Crystal Properties Matthews coefficient Solvent content 2.36 47.85
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.376 α = 90 b = 89.376 β = 90 c = 341.506 γ = 90
Symmetry Space Group P 41 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 100 CCD ADSC QUANTUM 315r 2015-12-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL18U1 0.97776 SSRF BL18U1
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 1.99 50.01 100 0.2 18.55 19.5 96080
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 1.99 2.02 100 0.88 5.25 18
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 7C5F 1.99 50 90975 4747 99.85 0.16391 0.16102 0.1721 0.21896 0.2253 RANDOM 26.921
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] 0.04 0.04 -0.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.611 r_dihedral_angle_4_deg 17.974 r_dihedral_angle_3_deg 12.786 r_dihedral_angle_1_deg 6.906 r_long_range_B_refined 6.338 r_long_range_B_other 6.322 r_scangle_other 4.886 r_scbond_it 3.324 r_scbond_other 3.324 r_mcangle_it 2.89
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.611 r_dihedral_angle_4_deg 17.974 r_dihedral_angle_3_deg 12.786 r_dihedral_angle_1_deg 6.906 r_long_range_B_refined 6.338 r_long_range_B_other 6.322 r_scangle_other 4.886 r_scbond_it 3.324 r_scbond_other 3.324 r_mcangle_it 2.89 r_mcangle_other 2.89 r_mcbond_it 2.197 r_mcbond_other 2.196 r_angle_refined_deg 1.937 r_angle_other_deg 1.04 r_chiral_restr 0.118 r_bond_refined_d 0.019 r_gen_planes_refined 0.01 r_bond_other_d 0.002 r_gen_planes_other 0.002 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 10071 Nucleic Acid Atoms Solvent Atoms 1112 Heterogen Atoms 196
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling MLPHARE phasing