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Structure of a periplasmic oligogalacturonide binding protein from Yersinia enterocolitica
Crystallization Crystal Properties Matthews coefficient Solvent content 2.04 44.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.978 α = 90 b = 79.523 β = 90 c = 117.772 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 113 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE
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 20 96.2 0.08 10.4 3.58 20810 3
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 MOLECULAR REPLACEMENT THROUGHOUT 2.2 65.94 19725 1075 95.9 0.196 0.192 0.1953 0.265 0.2662 RANDOM 22.66
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] 0.95 -0.47 -0.48
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.415 r_dihedral_angle_4_deg 26.845 r_dihedral_angle_3_deg 17.282 r_dihedral_angle_1_deg 11.253 r_scangle_it 4.129 r_scbond_it 2.873 r_angle_refined_deg 1.933 r_mcangle_it 1.636 r_mcbond_it 1.074 r_symmetry_vdw_refined 0.561
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.415 r_dihedral_angle_4_deg 26.845 r_dihedral_angle_3_deg 17.282 r_dihedral_angle_1_deg 11.253 r_scangle_it 4.129 r_scbond_it 2.873 r_angle_refined_deg 1.933 r_mcangle_it 1.636 r_mcbond_it 1.074 r_symmetry_vdw_refined 0.561 r_symmetry_hbond_refined 0.35 r_nbtor_refined 0.313 r_nbd_refined 0.264 r_xyhbond_nbd_refined 0.207 r_chiral_restr 0.192 r_bond_refined_d 0.022 r_gen_planes_refined 0.009 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3219 Nucleic Acid Atoms Solvent Atoms 376 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement