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Structure of Catalytic Elimination Antibody 13G5 from a crystal in space group P2(1)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1HIN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 298 PEG 8000, 0.1M MES, 0.2M Zn(OAc)2, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 298.0K
Crystal Properties Matthews coefficient Solvent content 2.52 51.27
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.209 α = 90 b = 73.495 β = 96.33 c = 130.475 γ = 90
Symmetry Space Group P 1 21 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 CCD ADSC QUANTUM 315 2002-04-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.95369 SSRL BL11-1
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 2.65 40 97.5 0.07 13.9 3.5 28609 27894
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 2.65 2.71 91.8 0.76 1.8 3.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 1HIN 2.65 40 26296 24442 1238 92.95 0.21494 0.21312 0.209 0.2496 0.2459 RANDOM 94.943
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] 4.54 2.14 0.35 -4.42
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.942 r_dihedral_angle_4_deg 20.535 r_dihedral_angle_3_deg 19.431 r_dihedral_angle_1_deg 7.163 r_scangle_it 1.871 r_angle_refined_deg 1.431 r_scbond_it 1.22 r_mcangle_it 0.878 r_mcbond_it 0.489 r_nbtor_refined 0.309
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.942 r_dihedral_angle_4_deg 20.535 r_dihedral_angle_3_deg 19.431 r_dihedral_angle_1_deg 7.163 r_scangle_it 1.871 r_angle_refined_deg 1.431 r_scbond_it 1.22 r_mcangle_it 0.878 r_mcbond_it 0.489 r_nbtor_refined 0.309 r_symmetry_hbond_refined 0.298 r_symmetry_vdw_refined 0.26 r_nbd_refined 0.22 r_metal_ion_refined 0.215 r_xyhbond_nbd_refined 0.157 r_symmetry_metal_ion_refined 0.145 r_chiral_restr 0.092 r_bond_refined_d 0.014 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_other r_symmetry_vdw_other r_symmetry_hbond_other 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 6668 Nucleic Acid Atoms Solvent Atoms 27 Heterogen Atoms 11
Software Software Software Name Purpose REFMAC refinement ADSC data collection DENZO data reduction SCALEPACK data scaling AMoRE phasing