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Yeast delta-COP-I mu-homology domain complexed with Dsl1 WxWxV peptide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5FJW PDB ENTRY 5FJW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.6 0.1 M HEPES PH 6.6, 2.8 M AMMONIUM SULPHATE
Crystal Properties Matthews coefficient Solvent content 2.12 41.95
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 72.81 α = 90 b = 72.81 β = 90 c = 343.29 γ = 120
Symmetry Space Group P 31 2 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 2011-02-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 Diamond I03
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 1.9 36 98.3 0.13 11.3 9.1 78953 99
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 1.9 1.94 98.3 0.71 3.4 9.2
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 5FJW 1.9 36.4 78953 4205 97.96 0.14661 0.14454 0.18612 0.1939 RANDOM 28.446
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] 0.83 0.83 -1.66
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.831 r_dihedral_angle_3_deg 17.972 r_dihedral_angle_4_deg 15.609 r_dihedral_angle_1_deg 7.093 r_mcangle_it 4.394 r_scbond_it 4.289 r_mcbond_it 3.186 r_mcbond_other 3.184 r_angle_refined_deg 2.071 r_angle_other_deg 1.71
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.831 r_dihedral_angle_3_deg 17.972 r_dihedral_angle_4_deg 15.609 r_dihedral_angle_1_deg 7.093 r_mcangle_it 4.394 r_scbond_it 4.289 r_mcbond_it 3.186 r_mcbond_other 3.184 r_angle_refined_deg 2.071 r_angle_other_deg 1.71 r_chiral_restr 0.16 r_bond_refined_d 0.02 r_gen_planes_refined 0.013 r_bond_other_d 0.011 r_gen_planes_other 0.009 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_mcangle_other r_scbond_other r_scangle_it 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 8374 Nucleic Acid Atoms Solvent Atoms 540 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction Aimless data scaling PHASER phasing