☰ Navigation Tabs
Selenomethionine mutant (A34Sem) of protein GB1 examined by X-ray diffraction
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2QMT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.9 283.15 49% MPD
20% IPA
25 mM sodium acetate pH 4.9
20 mg/ml protein in 25 mM sodium acetate buffer pH 5.5 and 2 mM TCEP
Crystal Properties Matthews coefficient Solvent content 1.85 33.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 22.965 α = 90 b = 37.048 β = 110.16 c = 28.719 γ = 90
Symmetry Space Group P 1 21 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 PILATUS3 6M 2017-08-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.1 0.9795 ALS 5.0.1
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 1.1 26.96 99.78 0.02873 0.04063 0.02873 0.998 11.55 2 18407 6.66
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 1.1 1.139 98.79 0.05434 0.07685 0.05434 0.99 2
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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2QMT 1.1 26.959 1.48 35896 3089 99.49 0.1309 0.1293 0.1471 0.1803
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 24.17 f_angle_d 0.938 f_chiral_restr 0.072 f_bond_d 0.007 f_plane_restr 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 437 Nucleic Acid Atoms Solvent Atoms 97 Heterogen Atoms 21
Software Software Software Name Purpose PHENIX refinement XDS data reduction PHENIX model building