☰ Navigation Tabs
Crystal Structure of BoxB crystallized with PEG
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3PF7 pdb entry 3PF7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 298 13% PEG 4000
0.1M sodium acetate, pH 4.6
0.1M Li2SO4
18% glycerol
5 mM benzoyl-CoA
0.1 mg/ml BoxA
0.1 M KCl
10 mM Pipes, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.52 51.18
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 209.66 α = 90 b = 76.77 β = 109.43 c = 147.83 γ = 90
Symmetry Space Group C 1 2 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 PSI PILATUS 6M 2010-07-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 0.9999 SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (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 2.5 43.7 99 0.131 0.113 8.56 77107 76352
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.5 2.6 96.3
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 pdb entry 3PF7 2.5 43.7 72478 3824 99.03 0.20735 0.2059 0.2033 0.23498 0.2315 RANDOM 46.457
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] -1.08 0.15 1.73 -0.55
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.377 r_dihedral_angle_4_deg 21.373 r_dihedral_angle_3_deg 14.752 r_dihedral_angle_1_deg 5.637 r_scangle_it 3.307 r_scbond_it 2.209 r_angle_refined_deg 1.317 r_mcangle_it 1.165 r_angle_other_deg 0.94 r_mcbond_it 0.571
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.377 r_dihedral_angle_4_deg 21.373 r_dihedral_angle_3_deg 14.752 r_dihedral_angle_1_deg 5.637 r_scangle_it 3.307 r_scbond_it 2.209 r_angle_refined_deg 1.317 r_mcangle_it 1.165 r_angle_other_deg 0.94 r_mcbond_it 0.571 r_mcbond_other 0.103 r_chiral_restr 0.072 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 r_gen_planes_other 0.003 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 15298 Nucleic Acid Atoms Solvent Atoms 274 Heterogen Atoms 36
Software Software Software Name Purpose PHASER phasing REFMAC refinement XDS data reduction XDS data scaling