☰ Navigation Tabs
Crystal structure of the chaperonin gp146 from the bacteriophage EL 2 (Pseudomonas aeruginosa) in presence of ATP-BeFx, crystal form II
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1WF4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 8 293 8 % PEG-6000, 0.15 M NaCl and 0.1 M Tris-HCl pH 8.0
Crystal Properties Matthews coefficient Solvent content 3.34 63.14
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 145.516 α = 90 b = 151.461 β = 90 c = 261.347 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 2018-04-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID30B 0.8500 ESRF ID30B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim 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 3.54 49.47 99.8 0.111 0.125 0.056 0.997 7.9 4.9 70880
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.54 3.62 99.9 1.119 1.255 0.557 0.465 4.9
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 EMD-6492 3.54 30 67159 3576 99.51 0.2516 0.2504 0.2423 0.2747 0.2683 RANDOM 170.101
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] 0.38 1.36 -1.74
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.559 r_dihedral_angle_3_deg 13.241 r_dihedral_angle_4_deg 10.922 r_dihedral_angle_1_deg 5.054 r_angle_refined_deg 0.967 r_angle_other_deg 0.865 r_chiral_restr 0.051 r_bond_refined_d 0.005 r_bond_other_d 0.003 r_gen_planes_refined 0.003
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.559 r_dihedral_angle_3_deg 13.241 r_dihedral_angle_4_deg 10.922 r_dihedral_angle_1_deg 5.054 r_angle_refined_deg 0.967 r_angle_other_deg 0.865 r_chiral_restr 0.051 r_bond_refined_d 0.005 r_bond_other_d 0.003 r_gen_planes_refined 0.003 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 29093 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 213
Software Software Software Name Purpose XDS data reduction Aimless data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction