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Structural insights into de multifunctional VP3 protein of birnaviruses:gold derivative
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 298 2.5M NaCl 0.1M Sodium Acetate pH 5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.05 59.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.749 α = 90 b = 69.749 β = 90 c = 71.656 γ = 90
Symmetry Space Group P 41 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 315 2006-03-04 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 1.039, 1.040, 1.037 ESRF ID23-2
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 2.3 30 99.6 7312 7312
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 99.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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 THROUGHOUT 2.4 20 7161 6832 329 97.93 0.23834 0.23614 0.2766 0.28492 0.2921 RANDOM 66.341
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] -0.57 -0.57 1.13
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.325 r_dihedral_angle_3_deg 20.89 r_dihedral_angle_4_deg 20.871 r_dihedral_angle_1_deg 5.443 r_scangle_it 2.459 r_scbond_it 1.465 r_angle_refined_deg 1.051 r_mcangle_it 1.045 r_mcbond_it 0.583 r_nbtor_refined 0.295
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.325 r_dihedral_angle_3_deg 20.89 r_dihedral_angle_4_deg 20.871 r_dihedral_angle_1_deg 5.443 r_scangle_it 2.459 r_scbond_it 1.465 r_angle_refined_deg 1.051 r_mcangle_it 1.045 r_mcbond_it 0.583 r_nbtor_refined 0.295 r_nbd_refined 0.202 r_symmetry_vdw_refined 0.192 r_xyhbond_nbd_refined 0.18 r_symmetry_hbond_refined 0.174 r_chiral_restr 0.08 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 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 1004 Nucleic Acid Atoms Solvent Atoms 29 Heterogen Atoms 3
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction DNA data collection SHARP phasing