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The crystal structure of endosomal complex ESCRT-II (VPS22/VPS25/VPS36)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8.5 3.1% PEG35000, 0.1 M TRIS ACETATE PH 8.5, 1.36 M SODIUM FORMIATE, 19% GLYCEROL
Crystal Properties Matthews coefficient Solvent content 6.09 79.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 149.908 α = 90 b = 149.908 β = 90 c = 186.152 γ = 90
Symmetry Space Group P 43 2 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 CCD MARRESEARCH MIRRORS 2004-05-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 ESRF ID23-1
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 3.6 92.06 99.3 0.07 4.7 7.5 24861 2
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 3.6 3.79 95.3 0.43 1.4 3.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 3.6 92.06 23786 1216 99 0.294 0.292 0.33 RANDOM 57.48
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] -2.14 -2.14 4.28
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 8.271 r_angle_refined_deg 1.603 r_angle_other_deg 1.004 r_scangle_it 0.924 r_scbond_it 0.555 r_mcangle_it 0.357 r_symmetry_hbond_refined 0.341 r_symmetry_vdw_other 0.273 r_nbd_refined 0.264 r_nbd_other 0.245
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 8.271 r_angle_refined_deg 1.603 r_angle_other_deg 1.004 r_scangle_it 0.924 r_scbond_it 0.555 r_mcangle_it 0.357 r_symmetry_hbond_refined 0.341 r_symmetry_vdw_other 0.273 r_nbd_refined 0.264 r_nbd_other 0.245 r_symmetry_vdw_refined 0.229 r_mcbond_it 0.181 r_xyhbond_nbd_refined 0.171 r_nbtor_other 0.096 r_chiral_restr 0.088 r_bond_refined_d 0.017 r_gen_planes_refined 0.005 r_bond_other_d 0.003 r_gen_planes_other 0.002 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_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 6134 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling SnB phasing autoSHARP phasing REFMAC refinement