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Hetero-micro-seeding: Crystal structure of BPTI-[5,55]C14GA38I variant using micro-seeds from -C14GA38G variant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2ZVX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 293 20-30% PEG4000; 0.2M Lithium Sulfate; 0.1M Tris-HCl pH8.5
Crystal Properties Matthews coefficient Solvent content 2.16 42.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 25.163 α = 90 b = 41.284 β = 99.32 c = 53.928 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 101 CCD AGILENT EOS CCD 2010-11-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NE3A 1.0 Photon Factory AR-NE3A
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 1.31 53.22 98 4.34 3.6 26484
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.31 1.36 98 0.289 0.289 4.34 3.6
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 2ZVX 1.31 53.22 24626 1290 97.83 0.18063 0.17906 0.1855 0.20951 0.2134 RANDOM 14.007
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 23.047 r_dihedral_angle_4_deg 15.017 r_dihedral_angle_3_deg 13.784 r_dihedral_angle_1_deg 6.482 r_long_range_B_refined 5.546 r_long_range_B_other 4.828 r_scangle_other 3.318 r_angle_refined_deg 2.62 r_scbond_other 2.285 r_scbond_it 2.281
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 23.047 r_dihedral_angle_4_deg 15.017 r_dihedral_angle_3_deg 13.784 r_dihedral_angle_1_deg 6.482 r_long_range_B_refined 5.546 r_long_range_B_other 4.828 r_scangle_other 3.318 r_angle_refined_deg 2.62 r_scbond_other 2.285 r_scbond_it 2.281 r_mcangle_it 1.727 r_mcangle_other 1.726 r_angle_other_deg 1.276 r_mcbond_other 1.227 r_mcbond_it 1.226 r_chiral_restr 0.203 r_bond_refined_d 0.028 r_gen_planes_refined 0.014 r_bond_other_d 0.003 r_gen_planes_other 0.002 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 896 Nucleic Acid Atoms Solvent Atoms 260 Heterogen Atoms 15
Software Software Software Name Purpose SHELXL data collection DENZO data reduction SCALA data scaling REFMAC refinement