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Crystal structure of catalytic elimination antibody 34E4, orthorhombic crystal form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1Y0L PDB ENTRY 1Y0L
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4.6 30% MPEG 2000, 0.2M (NH4)2SO4, 0.1M ACETATE, PH 4.6, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K, pH 4.60
Crystal Properties Matthews coefficient Solvent content 2.59 52.48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 81.137 α = 90 b = 114.471 β = 90 c = 212.131 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 ADSC QUANTUM 210 MONOCHROMATOR 2005-01-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.1 ALS 8.2.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.6 50 99.7 0.108 11.9 4.1 63551 51.4
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.6 2.69 99.9 0.628 2 4.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 PDB ENTRY 1Y0L 2.6 48.34 58339 3094 99.8 0.202 0.199 0.1966 0.253 0.2486 RANDOM 38.44
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] -0.55 1.79 -1.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.31 r_dihedral_angle_4_deg 18.933 r_dihedral_angle_3_deg 16.889 r_dihedral_angle_1_deg 6.311 r_scangle_it 3.111 r_scbond_it 2.093 r_angle_refined_deg 1.42 r_mcangle_it 1.069 r_mcbond_it 0.937 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.31 r_dihedral_angle_4_deg 18.933 r_dihedral_angle_3_deg 16.889 r_dihedral_angle_1_deg 6.311 r_scangle_it 3.111 r_scbond_it 2.093 r_angle_refined_deg 1.42 r_mcangle_it 1.069 r_mcbond_it 0.937 r_nbtor_refined 0.306 r_symmetry_vdw_refined 0.258 r_nbd_refined 0.215 r_symmetry_hbond_refined 0.206 r_xyhbond_nbd_refined 0.148 r_chiral_restr 0.093 r_bond_refined_d 0.013 r_gen_planes_refined 0.005 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13377 Nucleic Acid Atoms Solvent Atoms 518 Heterogen Atoms 33
Software Software Software Name Purpose PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling