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A simplified BPTI variant stabilized by the A14G and A38V substitutions
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4PTI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 293 15% PEG4000 ,15% Iisopropanol, 0.1M Sodium acetate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.1 41.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.333 α = 90 b = 39.058 β = 101.59 c = 49.231 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 95 CCD ADSC QUANTUM 210 2006-12-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW12A 1.000 Photon Factory AR-NW12A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1 48.224 100 0.294 0.243 4 53613 53613 3 3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1 1.04 100 0.294 0.243 4 53613
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 4PTI 1 48.22 3 53613 49180 2624 96.63 0.16659 0.16591 0.1664 0.17931 0.1779 RANDOM 11.401
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] 0.21 0.2 0.02 -0.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 19.288 r_dihedral_angle_3_deg 12.008 r_dihedral_angle_4_deg 11.142 r_dihedral_angle_1_deg 6.022 r_sphericity_bonded 1.944 r_sphericity_free 1.77 r_scangle_it 1.638 r_scbond_it 1.398 r_angle_refined_deg 1.131 r_rigid_bond_restr 1.009
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 19.288 r_dihedral_angle_3_deg 12.008 r_dihedral_angle_4_deg 11.142 r_dihedral_angle_1_deg 6.022 r_sphericity_bonded 1.944 r_sphericity_free 1.77 r_scangle_it 1.638 r_scbond_it 1.398 r_angle_refined_deg 1.131 r_rigid_bond_restr 1.009 r_mcangle_it 0.904 r_mcbond_it 0.595 r_nbtor_refined 0.316 r_nbd_refined 0.189 r_symmetry_vdw_refined 0.147 r_symmetry_hbond_refined 0.123 r_xyhbond_nbd_refined 0.087 r_chiral_restr 0.081 r_bond_refined_d 0.006 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 842 Nucleic Acid Atoms Solvent Atoms 253 Heterogen Atoms
Software Software Software Name Purpose HKL-2000 data collection Coot model building REFMAC refinement DENZO data reduction SCALEPACK data scaling