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The crystal structure of the E.coli EspP autotransporter Beta-domain.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other from MAD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.4 294 0.34M Cymal-1, 1% octylglucoside,
33% PEG 1000, 0.2M NaCl, 0.1M Na cacodylate pH 6.4, 5% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 3.6 65.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 84.951 α = 90 b = 53.298 β = 103.57 c = 102.418 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 CCD MARMOSAIC 300 mm CCD 2006-07-01 M MAD 2 1 x-ray 100 CCD MAR CCD 225 mm 2006-08-22 M SINGLE WAVELENGTH 1,2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 0.97180, 0.97925, 0.97947 APS 22-ID 2 SYNCHROTRON APS BEAMLINE 22-BM 0.97121 APS 22-BM
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.66 50 96.7 0.105 13 6.4 23299 23299
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1,2 2.66 2.76 79.4 0.553 1.92 5.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 MAD folllowed by Molecular Replacement THROUGHOUT from MAD 2.66 15 23299 23299 1243 95.44 0.25959 0.25959 0.25825 0.2764 0.28424 0.3092 RANDOM 53.36
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] -8.44 1.8 11.84 -2.56
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.128 r_dihedral_angle_3_deg 17.287 r_dihedral_angle_4_deg 14.722 r_dihedral_angle_1_deg 8.632 r_scangle_it 4.321 r_scbond_it 3.546 r_mcangle_it 3.441 r_mcbond_it 2.32 r_angle_refined_deg 1.286 r_angle_other_deg 0.929
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.128 r_dihedral_angle_3_deg 17.287 r_dihedral_angle_4_deg 14.722 r_dihedral_angle_1_deg 8.632 r_scangle_it 4.321 r_scbond_it 3.546 r_mcangle_it 3.441 r_mcbond_it 2.32 r_angle_refined_deg 1.286 r_angle_other_deg 0.929 r_mcbond_other 0.798 r_symmetry_vdw_other 0.292 r_symmetry_vdw_refined 0.254 r_nbd_other 0.192 r_nbtor_refined 0.19 r_nbd_refined 0.179 r_xyhbond_nbd_refined 0.14 r_chiral_restr 0.124 r_nbtor_other 0.087 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4011 Nucleic Acid Atoms Solvent Atoms 6 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHENIX phasing