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Crystal structure of Matrix protein 1 from influenza A virus A/crow/Kyoto/T1/2004(H5N1)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1AA7 PDB ENTRY 1AA7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 293 0.1M Tris-HCl, 0.2M Magnesium Chloride, 30 % PEG 4000, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.89 34.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 38.079 α = 90 b = 63.909 β = 95.11 c = 55.742 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 100 CCD RIGAKU JUPITER 210 mirrors 2007-04-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL26B2 1.0 SPring-8 BL26B2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.02 50 99.6 0.051 33.8 3.64 17580 -3 25.01
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.02 2.13 98.9 0.206 4.72 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 PDB ENTRY 1AA7 2.02 41.92 16257 811 96.74 0.2025 0.20101 0.2511 0.2303 0.2665 RANDOM 35.904
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] 1.86 2.35 -0.37 -1.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.492 r_dihedral_angle_4_deg 16.796 r_dihedral_angle_3_deg 15.949 r_dihedral_angle_1_deg 3.712 r_scangle_it 1.272 r_angle_refined_deg 0.887 r_scbond_it 0.78 r_mcangle_it 0.483 r_nbtor_refined 0.292 r_mcbond_it 0.271
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.492 r_dihedral_angle_4_deg 16.796 r_dihedral_angle_3_deg 15.949 r_dihedral_angle_1_deg 3.712 r_scangle_it 1.272 r_angle_refined_deg 0.887 r_scbond_it 0.78 r_mcangle_it 0.483 r_nbtor_refined 0.292 r_mcbond_it 0.271 r_nbd_refined 0.178 r_symmetry_vdw_refined 0.166 r_xyhbond_nbd_refined 0.117 r_symmetry_hbond_refined 0.103 r_chiral_restr 0.055 r_bond_refined_d 0.007 r_gen_planes_refined 0.002 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 2291 Nucleic Acid Atoms Solvent Atoms 124 Heterogen Atoms
Software Software Software Name Purpose CNS refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing REFMAC refinement