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Yeast delta-COP-I mu-homology domain complexed with Gcs1 WxxF 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 8.5 0.1M TRIS-HCL PH8.5, 0.2M MGCL2, 30% PEG-4000
Crystal Properties Matthews coefficient Solvent content 2.44 49.57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.765 α = 90 b = 84.855 β = 90 c = 148.64 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 2M 2011-08-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 Diamond I04-1
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 2.45 56 99.9 0.1 12.5 6.5 33682 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 2.45 2.55 99.9 0.9 1.9 5.8
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 PDB ENTRY 5FJW 2.45 74.32 31880 1745 99.91 0.20156 0.1971 0.2011 0.28742 0.2908 RANDOM 59.115
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] -1.42 -0.12 1.54
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.236 r_dihedral_angle_3_deg 16.247 r_dihedral_angle_4_deg 15.021 r_dihedral_angle_1_deg 7.473 r_mcangle_it 6.243 r_scbond_it 4.032 r_mcbond_it 3.989 r_mcbond_other 3.983 r_angle_refined_deg 1.616 r_angle_other_deg 0.967
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.236 r_dihedral_angle_3_deg 16.247 r_dihedral_angle_4_deg 15.021 r_dihedral_angle_1_deg 7.473 r_mcangle_it 6.243 r_scbond_it 4.032 r_mcbond_it 3.989 r_mcbond_other 3.983 r_angle_refined_deg 1.616 r_angle_other_deg 0.967 r_chiral_restr 0.09 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.002 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 6221 Nucleic Acid Atoms Solvent Atoms 258 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction Aimless data scaling PHASER phasing