☰ Navigation Tabs
Engineering the enolase active site pocket: Crystal structure of the S39N D321R mutant of yeast enolase 1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2ONE PDB ENTRY 2ONE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 20% PEG 8000, 0.2M SODIUM ACETATE, 0.1M SODIUM CACODYLATE PH 6.5
Crystal Properties Matthews coefficient Solvent content 2.47 50.22
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.38 α = 73.01 b = 63.05 β = 79.28 c = 64.43 γ = 81.22
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 6M 2008-09-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA SLS X10SA
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 1.8 40 75.9 0.16 11.66 1.65 64875 2 23.9
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 1.8 1.91 76.8 0.9 2.05 1.63
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 2ONE 1.8 37.9 61582 3291 76.1 0.166 0.164 0.165 0.208 0.2079 RANDOM 16.78
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] 0.01 0.01 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.453 r_dihedral_angle_4_deg 17.46 r_dihedral_angle_3_deg 14.248 r_dihedral_angle_1_deg 5.715 r_scangle_it 2.797 r_scbond_it 1.722 r_angle_refined_deg 1.245 r_mcangle_it 1.049 r_mcbond_it 0.612 r_nbtor_refined 0.299
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.453 r_dihedral_angle_4_deg 17.46 r_dihedral_angle_3_deg 14.248 r_dihedral_angle_1_deg 5.715 r_scangle_it 2.797 r_scbond_it 1.722 r_angle_refined_deg 1.245 r_mcangle_it 1.049 r_mcbond_it 0.612 r_nbtor_refined 0.299 r_nbd_refined 0.221 r_xyhbond_nbd_refined 0.179 r_symmetry_hbond_refined 0.178 r_symmetry_vdw_refined 0.172 r_chiral_restr 0.087 r_bond_refined_d 0.01 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6530 Nucleic Acid Atoms Solvent Atoms 799 Heterogen Atoms 25
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling MOLREP phasing