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Hendra virus attachment glycoprotein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2VWD PDB ENTRY 2VWD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 30% PEG 8000, 0.2 M AMMONIUM SULPHATE, 0.1 M SODIUM CACODYLATE BUFFER PH 6.5
Crystal Properties Matthews coefficient Solvent content 2.4 48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.883 α = 103.39 b = 84.775 β = 99.63 c = 91.548 γ = 108.62
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 225 mm CCD MIRRORS 2009-05-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 ESRF ID23-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.9 50 99.2 0.17 6.1 3 38664 -3 37.8
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 2.9 2.95 98 0.45 2.9 2.9
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 2VWD 2.9 44.2 36735 1926 98.92 0.23507 0.23306 0.236 0.27273 0.2735 RANDOM 23.765
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] 0.97 0.11 -0.34 -0.25 -0.09 -0.81
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.702 r_dihedral_angle_4_deg 16.829 r_dihedral_angle_3_deg 15.165 r_dihedral_angle_1_deg 6.324 r_scangle_it 1.701 r_mcangle_it 1.306 r_angle_refined_deg 1.124 r_scbond_it 0.986 r_angle_other_deg 0.904 r_mcbond_it 0.705
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.702 r_dihedral_angle_4_deg 16.829 r_dihedral_angle_3_deg 15.165 r_dihedral_angle_1_deg 6.324 r_scangle_it 1.701 r_mcangle_it 1.306 r_angle_refined_deg 1.124 r_scbond_it 0.986 r_angle_other_deg 0.904 r_mcbond_it 0.705 r_mcbond_other 0.131 r_chiral_restr 0.087 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 r_bond_other_d 0.003 r_gen_planes_other 0.001 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13207 Nucleic Acid Atoms Solvent Atoms 117 Heterogen Atoms 140
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling PHASER phasing