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Crystal structure of S25-2 Fab in complex with Kdo analogues
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 vapour diffusion 8 300 PEG 4000, ethelyene glycol, pH 8.0, vapour diffusion, temperature 300K
Crystal Properties Matthews coefficient Solvent content 2.54 51.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.94 α = 90 b = 81.49 β = 90 c = 131.42 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 100 IMAGE PLATE RIGAKU RAXIS IV++ 2007-06-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-002 1.54
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 1.5 19.91 95.7 0.035 15.9 3.28 76352
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) 1.5 1.55 84.6 0.285 2.7 2.21 6654
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 1.6 19.9 63758 3246 96.69 0.218 0.217 0.2114 0.239 0.232 RANDOM 18.655
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] 0.12 -0.05 -0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.886 r_dihedral_angle_4_deg 16.592 r_dihedral_angle_3_deg 13.048 r_dihedral_angle_1_deg 6.309 r_scangle_it 3.255 r_scbond_it 2.361 r_angle_refined_deg 1.542 r_mcangle_it 1.481 r_mcbond_it 0.941 r_nbtor_refined 0.304
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.886 r_dihedral_angle_4_deg 16.592 r_dihedral_angle_3_deg 13.048 r_dihedral_angle_1_deg 6.309 r_scangle_it 3.255 r_scbond_it 2.361 r_angle_refined_deg 1.542 r_mcangle_it 1.481 r_mcbond_it 0.941 r_nbtor_refined 0.304 r_nbd_refined 0.208 r_symmetry_vdw_refined 0.168 r_symmetry_hbond_refined 0.157 r_chiral_restr 0.11 r_xyhbond_nbd_refined 0.108 r_metal_ion_refined 0.044 r_symmetry_metal_ion_refined 0.022 r_bond_refined_d 0.013 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3349 Nucleic Acid Atoms Solvent Atoms 374 Heterogen Atoms 35
Software Software Software Name Purpose d*TREK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction CrystalClear data reduction