☰ Navigation Tabs
Crystal structure of Trypanosoma Brucei PEX14 N-terminal domain in complex with small molecules to investigate the water envelope
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5AON
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 0.22M Li2SO4
0.1M Tris-HCl pH8.5 29%
PEG 4000
Crystal Properties Matthews coefficient Solvent content 2.57 52.12
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.863 α = 90 b = 116.368 β = 101.46 c = 38.962 γ = 90
Symmetry Space Group P 1 21 1
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-F 2017-04-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, DESY BEAMLINE P11 1.033 PETRA III, DESY P11
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) 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 1.5 20 95.6 0.053 0.067 0.996 9.04 2.501 48921 -3 29.403
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.5 1.54 88.9 0.728 0.926 0.548 1.33 2.48
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 5AON 1.5 20 46462 2440 97.88 0.1776 0.1762 0.1776 0.2021 0.1813 RANDOM 24.751
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] -0.3 -0.78 1.35 -0.68
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.465 r_dihedral_angle_4_deg 21.351 r_dihedral_angle_3_deg 14.664 r_dihedral_angle_1_deg 4.634 r_angle_other_deg 2.533 r_angle_refined_deg 2.424 r_chiral_restr 0.126 r_bond_refined_d 0.027 r_bond_other_d 0.017 r_gen_planes_refined 0.014
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.465 r_dihedral_angle_4_deg 21.351 r_dihedral_angle_3_deg 14.664 r_dihedral_angle_1_deg 4.634 r_angle_other_deg 2.533 r_angle_refined_deg 2.424 r_chiral_restr 0.126 r_bond_refined_d 0.027 r_bond_other_d 0.017 r_gen_planes_refined 0.014 r_gen_planes_other 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2076 Nucleic Acid Atoms Solvent Atoms 392 Heterogen Atoms 197
Software Software Software Name Purpose XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction XDS data reduction PHASER phasing