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Crystal structure of 6B9 FAB
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1MAM FAB FROM YST9.1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 298 6.8% PEG 8000, 0.05M SODIUM CACODYLATE AND 0.1M CALCIUM ACETATE, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.29 46.25
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.641 α = 90 b = 131.99 β = 90 c = 36.921 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 ADSC QUANTUM 210 1996-09-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CHESS BEAMLINE A1 CHESS A1
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 2.45 20 15501
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 FAB FROM YST9.1 2.45 20 15501 763 99.6 0.201 0.197 0.2016 0.279 0.2666 RANDOM 20.63
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] 0.93 -0.49 -0.43
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.19 r_dihedral_angle_4_deg 22.998 r_dihedral_angle_3_deg 22.694 r_dihedral_angle_1_deg 7.723 r_scangle_it 4.103 r_scbond_it 2.771 r_angle_refined_deg 2.061 r_mcangle_it 1.941 r_mcbond_it 1.158 r_nbtor_refined 0.314
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.19 r_dihedral_angle_4_deg 22.998 r_dihedral_angle_3_deg 22.694 r_dihedral_angle_1_deg 7.723 r_scangle_it 4.103 r_scbond_it 2.771 r_angle_refined_deg 2.061 r_mcangle_it 1.941 r_mcbond_it 1.158 r_nbtor_refined 0.314 r_nbd_refined 0.268 r_symmetry_hbond_refined 0.25 r_symmetry_vdw_refined 0.213 r_xyhbond_nbd_refined 0.208 r_chiral_restr 0.137 r_bond_refined_d 0.02 r_gen_planes_refined 0.008 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 3316 Nucleic Acid Atoms Solvent Atoms 181 Heterogen Atoms 2
Software Software Software Name Purpose ADSC data collection MOLREP phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling