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Crystal structure of hapten complex of catalytic elimination antibody 13G5 (wild-type)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2GJZ PDB entry 2GJZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 298 25% PEG 3350, 0.1M Tris-HCl, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.25 45.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 84.071 α = 90 b = 87.001 β = 90 c = 59.419 γ = 90
Symmetry Space Group P 21 21 2
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 MARMOSAIC 325 mm CCD FLAT COLLIMATING MIRROR, TOROID FOCUSING MIRROR 2006-08-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.9795 SSRL BL9-2
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 2.5 50 99.7 0.076 36.3 6.6 15696 -3
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 2.5 2.56 99.2 0.552 3.8 6.2
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 2GJZ 2.5 32.39 14790 800 99.59 0.22163 0.2187 0.2196 0.27684 0.2759 RANDOM 55.185
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] 2.7 -4.93 2.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.786 r_dihedral_angle_4_deg 20.128 r_dihedral_angle_3_deg 17.004 r_dihedral_angle_1_deg 6.67 r_scangle_it 2.039 r_angle_refined_deg 1.409 r_scbond_it 1.364 r_mcangle_it 0.754 r_mcbond_it 0.597 r_nbtor_refined 0.303
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.786 r_dihedral_angle_4_deg 20.128 r_dihedral_angle_3_deg 17.004 r_dihedral_angle_1_deg 6.67 r_scangle_it 2.039 r_angle_refined_deg 1.409 r_scbond_it 1.364 r_mcangle_it 0.754 r_mcbond_it 0.597 r_nbtor_refined 0.303 r_symmetry_vdw_refined 0.222 r_symmetry_hbond_refined 0.209 r_nbd_refined 0.208 r_xyhbond_nbd_refined 0.143 r_chiral_restr 0.086 r_bond_refined_d 0.012 r_gen_planes_refined 0.004 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 3269 Nucleic Acid Atoms Solvent Atoms 49 Heterogen Atoms 25
Software Software Software Name Purpose MAR345 data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling