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YopM from Yersinia enterocolitica WA-314
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 BisTris Propane, sodium citrate, PEG 3350
Crystal Properties Matthews coefficient Solvent content 4.07 69.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 210.847 α = 90 b = 126.29 β = 118.26 c = 139.933 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 2013-09-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P14 (MX2) 0.979570 PETRA III, EMBL c/o DESY P14 (MX2)
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 3.2 50 97 14.2 6.59 64045 94.62
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 THROUGHOUT 3.2 30 50515 2707 99.59 0.18251 0.18148 0.1826 0.20124 0.1995 RANDOM 101.759
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] 1.25 -0.79 -0.76 0.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.689 r_dihedral_angle_4_deg 17.494 r_dihedral_angle_3_deg 16.598 r_long_range_B_refined 7.84 r_long_range_B_other 7.829 r_dihedral_angle_1_deg 5.36 r_scangle_other 5.189 r_mcangle_it 4.312 r_mcangle_other 4.312 r_scbond_it 3.075
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.689 r_dihedral_angle_4_deg 17.494 r_dihedral_angle_3_deg 16.598 r_long_range_B_refined 7.84 r_long_range_B_other 7.829 r_dihedral_angle_1_deg 5.36 r_scangle_other 5.189 r_mcangle_it 4.312 r_mcangle_other 4.312 r_scbond_it 3.075 r_scbond_other 3.074 r_mcbond_it 2.613 r_mcbond_other 2.613 r_angle_refined_deg 1.234 r_angle_other_deg 1.169 r_chiral_restr 0.066 r_bond_refined_d 0.006 r_gen_planes_refined 0.005 r_bond_other_d 0.004 r_gen_planes_other 0.002 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 14167 Nucleic Acid Atoms Solvent Atoms 59 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement