☰ Navigation Tabs
Crystal structure of rabbit muscle triosephosphate isomerase-PEP complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1R2R
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293 0.1 M MES pH: 6.5, 25% PEG 8000
Crystal Properties Matthews coefficient Solvent content 2.01 38.95
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.848 α = 90 b = 72.071 β = 90 c = 161.204 γ = 90
Symmetry Space Group P 21 21 21
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 2011-07-14 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I24 0.9795 Diamond I24
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.55 43.08 93.4 8 2.7 59113
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 FREE R-VALUE 1R2R 1.55 43.08 55957 2987 92.9 0.169 0.167 0.176 0.203 0.2105 RANDOM 16.82
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 0.06 -0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.959 r_dihedral_angle_4_deg 12.247 r_dihedral_angle_3_deg 12.148 r_dihedral_angle_1_deg 5.945 r_long_range_B_refined 4.82 r_long_range_B_other 4.722 r_scangle_other 3.965 r_scbond_it 2.595 r_scbond_other 2.595 r_angle_other_deg 2.405
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.959 r_dihedral_angle_4_deg 12.247 r_dihedral_angle_3_deg 12.148 r_dihedral_angle_1_deg 5.945 r_long_range_B_refined 4.82 r_long_range_B_other 4.722 r_scangle_other 3.965 r_scbond_it 2.595 r_scbond_other 2.595 r_angle_other_deg 2.405 r_mcangle_it 2.335 r_mcangle_other 2.335 r_angle_refined_deg 1.905 r_mcbond_it 1.676 r_mcbond_other 1.676 r_chiral_restr 0.117 r_bond_refined_d 0.02 r_gen_planes_other 0.015 r_gen_planes_refined 0.01 r_bond_other_d 0.001 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 3713 Nucleic Acid Atoms Solvent Atoms 425 Heterogen Atoms 20
Software Software Software Name Purpose MOSFLM data reduction PHASER phasing REFMAC refinement