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Structure of PE-PPE domains of ESX-1 secreted protein EspB, I222
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4XWP PDB entry 4XWP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 10.5 298 0.2M sodium chloride, 0.1M CAPS, PH 10.5, 1.26M ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 4.05 69.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.12 α = 90 b = 93.07 β = 90 c = 142.94 γ = 90
Symmetry Space Group I 2 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD MARMOSAIC 300 mm CCD 2014-04-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.000 APS 22-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 2.14 71.47 97.8 0.092 0.103 13.79 5.4 27319 26723 -3 40.842
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.14 2.26 98.652 0.873 1.094 2.83 5.48
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 4XWP 2.14 71.47 25348 1385 97.85 0.2064 0.2041 0.2141 0.2506 0.2538 RANDOM 45.231
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] -3.41 3.48 -0.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.55 r_dihedral_angle_4_deg 14.489 r_dihedral_angle_3_deg 13.203 r_dihedral_angle_1_deg 5.466 r_mcangle_it 3.924 r_mcbond_it 2.585 r_mcbond_other 2.578 r_angle_refined_deg 1.312 r_angle_other_deg 0.914 r_chiral_restr 0.072
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.55 r_dihedral_angle_4_deg 14.489 r_dihedral_angle_3_deg 13.203 r_dihedral_angle_1_deg 5.466 r_mcangle_it 3.924 r_mcbond_it 2.585 r_mcbond_other 2.578 r_angle_refined_deg 1.312 r_angle_other_deg 0.914 r_chiral_restr 0.072 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1875 Nucleic Acid Atoms Solvent Atoms 174 Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing