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Structure of the carboxy-terminal domain of the turkey type 3 siadenovirus fibre, virulent form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3ZPE PDB ENTRY 3ZPE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 10MM [2-(N-MORPHOLINO)ETHANESULFONIC ACID]-NAOH PH 6.0, 1M (NH4)2HPO4, 0.1 M IMIDAZOLE PH 7.0
Crystal Properties Matthews coefficient Solvent content 2.1 42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 98.963 α = 90 b = 98.963 β = 90 c = 98.963 γ = 90
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 6M PAIR OF KB MIRRORS FOR ADJUSTABLE FOCUSING, PLANE- ELLIPSOIDAL, THREE COATING STRIPES (SI, RH, IR) - IRELEC INSYNC 2013-07-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALBA BEAMLINE XALOC ALBA XALOC
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 2.3 31.3 100 0.06 6.3 8.9 7327 56.8
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 2.3 2.42 100 0.53 1.4 9.2
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 3ZPE 2.3 30 6962 334 99.9 0.19903 0.19694 0.2022 0.23888 0.2429 RANDOM 64.861
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_scangle_it 8.471 r_mcangle_it 7.325 r_scbond_it 5.528 r_mcbond_it 5.098 r_mcbond_other 5.089 r_angle_refined_deg 1.553 r_angle_other_deg 0.761 r_nbd_refined 0.208 r_xyhbond_nbd_refined 0.196 r_nbd_other 0.179
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 8.471 r_mcangle_it 7.325 r_scbond_it 5.528 r_mcbond_it 5.098 r_mcbond_other 5.089 r_angle_refined_deg 1.553 r_angle_other_deg 0.761 r_nbd_refined 0.208 r_xyhbond_nbd_refined 0.196 r_nbd_other 0.179 r_nbtor_refined 0.173 r_symmetry_vdw_other 0.171 r_symmetry_vdw_refined 0.167 r_xyhbond_nbd_other 0.134 r_symmetry_hbond_refined 0.106 r_nbtor_other 0.084 r_chiral_restr 0.08 r_bond_refined_d 0.013 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_1_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_metal_ion_refined r_metal_ion_other 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 1091 Nucleic Acid Atoms Solvent Atoms 40 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling