☰ Navigation Tabs
[4+2] Aza-Cyclase Y293F variant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5W98
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 280 PEG 3350, pH = 8.5
Crystal Properties Matthews coefficient Solvent content 1.94 36.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 41.322 α = 90 b = 88.734 β = 91.56 c = 78.627 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 EIGER X 4M 2021-07-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-D 1.068737 APS 21-ID-D
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.696 78.598 98 0.104 0.042 0.999 14.1 7 61538
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.696 1.725 87.2 0.814 0.37 0.72 2.2 5.6
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 5W98 1.7 25 58213 2941 98.05 0.2082 0.2069 0.2086 0.2344 0.2374 RANDOM 21.946
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] -0.67 -0.36 0.38 0.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.493 r_dihedral_angle_4_deg 16.877 r_dihedral_angle_3_deg 13.043 r_dihedral_angle_1_deg 5.19 r_angle_refined_deg 0.999 r_chiral_restr 0.083 r_gen_planes_refined 0.005 r_bond_refined_d 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4793 Nucleic Acid Atoms Solvent Atoms 305 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction autoPROC data reduction autoPROC data scaling PHASER phasing