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Crystal structure of Fab of human mAb 2909 specific for quaternary neutralizing epitope of HIV-1 gp120
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 6.8 296 14% PEG 8000, 0.1M HEPES, pH6.8, 0.1M glycine, and 8% ethylene glycol, under the oil, temperature 296K, EVAPORATION
Crystal Properties Matthews coefficient Solvent content 3.5 64.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 178.504 α = 90 b = 178.504 β = 90 c = 218.9 γ = 120
Symmetry Space Group P 32 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 IMAGE PLATE MAR scanner 300 mm plate 2010-02-18 M SINGLE WAVELENGTH 2 1 x-ray 3 1 x-ray 4 1 x-ray
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B 1.03321 APS 23-ID-B 2 SYNCHROTRON NSLS BEAMLINE X6A 1.0 NSLS X6A 3 SYNCHROTRON APS BEAMLINE 17-ID 1.0 APS 17-ID 4 SYNCHROTRON NSLS BEAMLINE X4C 1.0 NSLS X4C
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 1,2,3,4 3 50 99.5 66903
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1,2,3,4 3 3.05 78.3
Refinement Statistics Diffraction ID Structure Solution Method Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT 3.192 46.653 0.19 66903 66876 3391 99.25 0.2013 0.199 0.1947 0.2429 0.2386
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] -2.7791 -2.7791 5.5582
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 15.868 f_angle_d 1.234 f_chiral_restr 0.079 f_bond_d 0.01 f_plane_restr 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 20042 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 42
Software Software Software Name Purpose Blu-Ice data collection MOLREP phasing PHENIX refinement HKL-2000 data reduction HKL-2000 data scaling