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The A178L mutation in the C-terminal hinge of the flexible loop-6 of triosephosphate isomerase (TIM) induces a more closed conformation of this hinge region in dimeric and monomeric TIM
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5TIM PDB ENTRY 5TIM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 0.1 M TEA PH 7.5, 2 % PEG 400, 2.0 M (NH4)2SO4
Crystal Properties Matthews coefficient Solvent content 3.32 62.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 119.23 α = 90 b = 59.29 β = 90 c = 46.95 γ = 90
Symmetry Space Group P 21 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 IMAGE PLATE MARRESEARCH MONTEL MIRRORS 2005-07-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE
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 1.89 25 99.5 0.03 63.26 8.52 27265 3
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 1.89 1.95 95.5 0.06 26.98 6.05
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 5TIM 1.89 20.01 25899 1364 100 0.142 0.139 0.1388 0.182 0.1811 RANDOM 13.93
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] 0.09 0.07 -0.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.989 r_dihedral_angle_4_deg 16.949 r_dihedral_angle_3_deg 14.043 r_dihedral_angle_1_deg 6.276 r_scangle_it 4.508 r_scbond_it 2.829 r_angle_refined_deg 1.714 r_mcangle_it 1.531 r_mcbond_it 1.01 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.989 r_dihedral_angle_4_deg 16.949 r_dihedral_angle_3_deg 14.043 r_dihedral_angle_1_deg 6.276 r_scangle_it 4.508 r_scbond_it 2.829 r_angle_refined_deg 1.714 r_mcangle_it 1.531 r_mcbond_it 1.01 r_nbtor_refined 0.306 r_nbd_refined 0.211 r_xyhbond_nbd_refined 0.155 r_symmetry_vdw_refined 0.14 r_symmetry_hbond_refined 0.135 r_chiral_restr 0.129 r_bond_refined_d 0.022 r_gen_planes_refined 0.009 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 1886 Nucleic Acid Atoms Solvent Atoms 462 Heterogen Atoms 24
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling MOLREP phasing