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Structural And Functional Characterization of an Agonistic Anti-Human EphA2 Monoclonal Antibody
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 298 20% PEG 4000, 0.1 M sodium acetate, 0.2 M
ammonium acetate, pH 5.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.39 48.49
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.94 α = 90 b = 120.859 β = 90 c = 286.238 γ = 90
Symmetry Space Group C 2 2 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 RAYONIX MX225HE 2009-11-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 31-ID 0.9793 APS 31-ID
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 2.5 20 90 67446 60701
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.5 20 48540 43686 2278 94.41 0.21868 0.21592 0.2214 0.27131 0.2728 RANDOM 23.433
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] -1.91 -3.52 5.43
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.536 r_dihedral_angle_3_deg 17.229 r_dihedral_angle_4_deg 16.152 r_dihedral_angle_1_deg 13.475 r_scangle_it 2.454 r_scbond_it 1.729 r_angle_refined_deg 1.587 r_mcangle_it 1.05 r_angle_other_deg 0.929 r_mcbond_it 0.841
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.536 r_dihedral_angle_3_deg 17.229 r_dihedral_angle_4_deg 16.152 r_dihedral_angle_1_deg 13.475 r_scangle_it 2.454 r_scbond_it 1.729 r_angle_refined_deg 1.587 r_mcangle_it 1.05 r_angle_other_deg 0.929 r_mcbond_it 0.841 r_symmetry_vdw_other 0.257 r_nbd_other 0.203 r_nbd_refined 0.201 r_nbtor_refined 0.188 r_symmetry_vdw_refined 0.163 r_xyhbond_nbd_refined 0.152 r_mcbond_other 0.136 r_symmetry_hbond_refined 0.102 r_chiral_restr 0.091 r_nbtor_other 0.09 r_bond_refined_d 0.016 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8770 Nucleic Acid Atoms Solvent Atoms 43 Heterogen Atoms
Software Software Software Name Purpose ADSC data collection PHASES phasing REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling