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Crystal Structure of dual specific Trm10 construct from Thermococcus kodakaraensis.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other previously solved structure ( unpublished)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 293 10% PEG6000, 0.2M LiCl and 0.1M NaAc pH 5.5
Crystal Properties Matthews coefficient Solvent content 2.39 48.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.082 α = 90 b = 71.082 β = 90 c = 192.233 γ = 120
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 EIGER X 9M 2016-04-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SOLEIL BEAMLINE PROXIMA 2 0.9801 SOLEIL PROXIMA 2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim 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 2.9 44.3924298364 99.87 0.1927 0.2044 0.06787 0.996 9.88 9.1 12193 64.104975072
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.9 2.999 99.67 1.135 1.203 0.3976 0.659 1.65 9.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION THROUGHOUT previously solved structure ( unpublished) 2.90001435892 44.3924298364 1.36606548727 12184 609 99.9016070843 0.196476138728 0.19354637844 0.250478342492 0.225 RANDOM 61.8643381185
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 13.5658259727 f_angle_d 0.477805560327 f_chiral_restr 0.0452164614726 f_plane_restr 0.00245607741186 f_bond_d 0.00188538703652
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3986 Nucleic Acid Atoms Solvent Atoms 23 Heterogen Atoms 78
Software Software Software Name Purpose PHENIX refinement XDS data reduction XDS data scaling PHASER phasing