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Crystal structure of the Yersinia Type III Secretion protein YscE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.5 298 PEG 3350, sodium acetate, glycerol, pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.4 48.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.969 α = 90 b = 84.622 β = 90 c = 81.799 γ = 90
Symmetry Space Group P 21 21 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 MARRESEARCH 2004-03-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1 APS 22-ID
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 1.8 25 97 0.091 20 7.3 54088 2 3.3 28.581
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) 1.8 1.86 88 0.56 3.3 7.2 5329
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 MIR THROUGHOUT 1.8 25 54088 51152 2740 99.77 0.22715 0.22545 0.2528 0.25912 0.2843 RANDOM 33.284
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] 1.19 0.93 -2.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.685 r_dihedral_angle_3_deg 18.805 r_dihedral_angle_4_deg 16.485 r_scangle_it 5.361 r_dihedral_angle_1_deg 5.275 r_scbond_it 3.641 r_mcangle_it 2.06 r_angle_other_deg 2.029 r_mcbond_it 2.013 r_angle_refined_deg 1.99
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.685 r_dihedral_angle_3_deg 18.805 r_dihedral_angle_4_deg 16.485 r_scangle_it 5.361 r_dihedral_angle_1_deg 5.275 r_scbond_it 3.641 r_mcangle_it 2.06 r_angle_other_deg 2.029 r_mcbond_it 2.013 r_angle_refined_deg 1.99 r_mcbond_other 0.458 r_symmetry_vdw_other 0.258 r_symmetry_hbond_refined 0.257 r_xyhbond_nbd_refined 0.25 r_symmetry_vdw_refined 0.25 r_nbd_refined 0.242 r_nbd_other 0.202 r_nbtor_refined 0.19 r_chiral_restr 0.127 r_nbtor_other 0.1 r_xyhbond_nbd_other 0.085 r_bond_refined_d 0.025 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3770 Nucleic Acid Atoms Solvent Atoms 334 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MAR345 data collection SCALEPACK data scaling SOLVE phasing