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PFA2 FAB fragment, triclinic apo form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1NCW PDB ENTRY 1NCW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 8.5 294 25% PEG3350, 0.1 M Tris, pH 8.5, VAPOR DIFFUSION, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.14 42.49
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 41.564 α = 95.81 b = 42.776 β = 94.81 c = 58.355 γ = 91.11
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 113 IMAGE PLATE RIGAKU RAXIS IV mirrors 2005-10-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.54
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 2.3 22 93.3 0.072 10.8 1.7 16504 38.6
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 2.3 2.38 92.8 0.359 2 1.7 1639
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 1NCW 2.3 20.7 16487 854 93.3 0.215 0.211 0.2129 0.278 0.2802 RANDOM 27.147
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] 0.18 0.03 0.02 -0.02 0.12 -0.13
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.951 r_dihedral_angle_3_deg 16.408 r_dihedral_angle_4_deg 15.609 r_dihedral_angle_1_deg 7.583 r_scangle_it 1.607 r_angle_refined_deg 1.332 r_scbond_it 1.063 r_mcangle_it 1.059 r_angle_other_deg 0.844 r_mcbond_it 0.616
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.951 r_dihedral_angle_3_deg 16.408 r_dihedral_angle_4_deg 15.609 r_dihedral_angle_1_deg 7.583 r_scangle_it 1.607 r_angle_refined_deg 1.332 r_scbond_it 1.063 r_mcangle_it 1.059 r_angle_other_deg 0.844 r_mcbond_it 0.616 r_symmetry_vdw_other 0.237 r_symmetry_hbond_refined 0.207 r_nbd_other 0.196 r_nbd_refined 0.181 r_xyhbond_nbd_refined 0.181 r_symmetry_vdw_refined 0.178 r_nbtor_refined 0.177 r_mcbond_other 0.086 r_nbtor_other 0.084 r_chiral_restr 0.076 r_xyhbond_nbd_other 0.035 r_bond_refined_d 0.01 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3362 Nucleic Acid Atoms Solvent Atoms 165 Heterogen Atoms 8
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing