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Structure to Function Correlations for Adeno-associated Virus Serotype 1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2G8G
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.3 298 1.0 M NaCl and 7% PEG 6K, pH 7.3, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.5 50.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 262.7 α = 90 b = 262.7 β = 90 c = 612.3 γ = 120
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 MARMOSAIC 300 mm CCD M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.00 APS 22-ID
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 2.5 50 89 0.129 0.123 12.3 3.9 247785
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 2.5 2.59 48.6 0.264 0.206 3.3 1.5 13401
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 2G8G 2.5 50 235361 12421 89.03 0.23 0.23 0.2571 0.25 0.261 RANDOM 36.488
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] -3.22 -1.61 -3.22 4.82
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.971 r_dihedral_angle_4_deg 22.359 r_dihedral_angle_3_deg 17.769 r_dihedral_angle_1_deg 7.662 r_scangle_it 4.869 r_scbond_it 3.124 r_mcangle_it 2.061 r_angle_refined_deg 1.771 r_mcbond_it 1.05 r_chiral_restr 0.143
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.971 r_dihedral_angle_4_deg 22.359 r_dihedral_angle_3_deg 17.769 r_dihedral_angle_1_deg 7.662 r_scangle_it 4.869 r_scbond_it 3.124 r_mcangle_it 2.061 r_angle_refined_deg 1.771 r_mcbond_it 1.05 r_chiral_restr 0.143 r_bond_refined_d 0.017 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 41200 Nucleic Acid Atoms Solvent Atoms 1300 Heterogen Atoms 180
Software Software Software Name Purpose MAR345 data collection REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling