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Crystal Structure of Side-VI IG1 Domain
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 9NQ2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 294 1.8 M Sodium acetate trihydrate pH 7.0, 0.1 M Bis-tris propane pH 7.0
Crystal Properties Matthews coefficient Solvent content 3.26 62.24
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 72.77 α = 90 b = 181.42 β = 90 c = 300.12 γ = 90
Symmetry Space Group C 2 2 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 120 PIXEL DECTRIS PILATUS 6M 2015-08-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL12-2 0.9795 SSRL BL12-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Rrim 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 2.51 50 97.8 0.104 0.104 0.113 0.998 15.66 6.3 66928 51.57
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.51 2.57 73.8 0.1121 0.1121 0.1285 0.547 1.22 3
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.51 46.51 66829 1945 97.72 0.209 0.2081 0.209 0.2385 0.2389 Random selection 62.38
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 12.9816 f_angle_d 0.7291 f_chiral_restr 0.0502 f_plane_restr 0.0057 f_bond_d 0.0045
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9276 Nucleic Acid Atoms Solvent Atoms 122 Heterogen Atoms 28
Software Software Software Name Purpose XDS data reduction XDS data scaling MOLREP phasing PHENIX refinement Coot model building