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Crystal structure of anti-GLD52 Fab complex with human GLD52 peptide mimetic
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 5.8 294 0.05M zinc acetate, 17% PEG3350, 0.1M MES pH 5.8
Crystal Properties Matthews coefficient Solvent content 2.5 50.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.4 α = 90 b = 131.2 β = 90 c = 133.8 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 CCD RIGAKU SATURN 944 2010-08-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE Cu FINE FOCUS 1.5419
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 30.53 95.9 0.054 0.063 12.9 3.13 47509
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.28 84.9 0.216 0.293 2.8 1.7
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 30.53 44897 2387 95.39 0.2372 0.2335 0.2299 0.3068 0.2999 RANDOM 28.763
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] 0.92 -0.64 -0.28
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.986 r_dihedral_angle_4_deg 24.768 r_dihedral_angle_3_deg 18.121 r_dihedral_angle_1_deg 7.487 r_angle_refined_deg 1.848 r_chiral_restr 0.119 r_bond_refined_d 0.019 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6629 Nucleic Acid Atoms Solvent Atoms 604 Heterogen Atoms 21
Software Software Software Name Purpose REFMAC refinement d*TREK data scaling PDB_EXTRACT data extraction HKL-2000 data reduction BALBES phasing