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Protein-protein interaction
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3NMW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 291 0.2M Ammonium sulfate, 0.1M Tris pH 8.0, 25% w/v PEG 4000
Crystal Properties Matthews coefficient Solvent content 3.62 66.07
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 114.073 α = 90 b = 114.073 β = 90 c = 308.295 γ = 120
Symmetry Space Group P 65 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 93 PIXEL DECTRIS PILATUS 6M 2015-06-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL19U1 0.978 SSRF BL19U1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 3.06 98.79 99.9 16.2 21.1 23462
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 3.06 3.27 99.8 0.815 5.6 21.5
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 3NMW 3.06 98.79 22256 1124 99.9 0.21504 0.21307 0.2178 0.25318 0.2585 RANDOM 60.036
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 0.5 1 -3.23
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.83 r_dihedral_angle_4_deg 18.144 r_dihedral_angle_3_deg 16.732 r_long_range_B_other 8.817 r_long_range_B_refined 8.807 r_dihedral_angle_1_deg 6.29 r_mcangle_other 5.87 r_mcangle_it 5.869 r_scangle_other 5.306 r_mcbond_it 3.537
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.83 r_dihedral_angle_4_deg 18.144 r_dihedral_angle_3_deg 16.732 r_long_range_B_other 8.817 r_long_range_B_refined 8.807 r_dihedral_angle_1_deg 6.29 r_mcangle_other 5.87 r_mcangle_it 5.869 r_scangle_other 5.306 r_mcbond_it 3.537 r_mcbond_other 3.536 r_scbond_it 3.106 r_scbond_other 3.106 r_angle_refined_deg 1.398 r_angle_other_deg 1.136 r_chiral_restr 0.074 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 r_bond_other_d 0.004 r_gen_planes_other 0.004 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5261 Nucleic Acid Atoms Solvent Atoms 106 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction XDS data scaling PHASER phasing