☰ Navigation Tabs
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 1ML1 PDB ENTRY 1ML1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8.2 1.75 M (NH4)2PO4, PH 8.2
Crystal Properties Matthews coefficient Solvent content 2.56 52.02
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 95.23 α = 90 b = 95.23 β = 90 c = 48.82 γ = 120
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 FLAT PRE-MIRROR AND BENT, VERTICALLY FOCUSSING 2004-11-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7B EMBL/DESY, HAMBURG BW7B
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 2.3 25 99.2 0.08 24.45 12.1 11321 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 2.3 2.35 99.9 0.22 13.03 12.44
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 1ML1 2.3 19.22 10755 565 100 0.204 0.201 0.1983 0.27 0.2661 RANDOM 16.92
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] -1.87 -0.94 -1.87 2.81
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.394 r_dihedral_angle_4_deg 18.613 r_dihedral_angle_3_deg 17.989 r_dihedral_angle_1_deg 6.197 r_scangle_it 2.349 r_scbond_it 1.632 r_angle_refined_deg 1.458 r_mcangle_it 0.97 r_mcbond_it 0.598 r_symmetry_hbond_refined 0.332
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.394 r_dihedral_angle_4_deg 18.613 r_dihedral_angle_3_deg 17.989 r_dihedral_angle_1_deg 6.197 r_scangle_it 2.349 r_scbond_it 1.632 r_angle_refined_deg 1.458 r_mcangle_it 0.97 r_mcbond_it 0.598 r_symmetry_hbond_refined 0.332 r_nbtor_refined 0.301 r_nbd_refined 0.227 r_symmetry_vdw_refined 0.193 r_xyhbond_nbd_refined 0.166 r_chiral_restr 0.102 r_bond_refined_d 0.015 r_gen_planes_refined 0.005 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 1829 Nucleic Acid Atoms Solvent Atoms 133 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling MOLREP phasing