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Crystal structure of T7 bacteriophage portal protein, 12mer, closed valve
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6QWP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 0.2 M CaCl2, 0.1 M sodium acetate pH 4.6 and 30 % (w/v) PEG 400
Crystal Properties Matthews coefficient Solvent content 3.22 61.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 165.85 α = 90 b = 191.33 β = 90 c = 260.67 γ = 90
Symmetry Space Group P 21 21 21
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 4 2003-07-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 0.9340 ESRF ID14-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 3.6 49.23 89.7 0.11 0.997 8.9 3.6 82010
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 3.6 3.73
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 6QWP 3.6 49.23 82010 4317 89.66 0.28643 0.28393 0.2829 0.33441 0.3274 RANDOM 181.058
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] -1.04 -5.49 6.53
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.058 r_dihedral_angle_3_deg 19.933 r_dihedral_angle_4_deg 16.058 r_mcangle_it 13.554 r_mcangle_other 13.554 r_scangle_other 11.964 r_mcbond_it 8.119 r_mcbond_other 8.117 r_dihedral_angle_1_deg 7.379 r_scbond_other 6.87
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.058 r_dihedral_angle_3_deg 19.933 r_dihedral_angle_4_deg 16.058 r_mcangle_it 13.554 r_mcangle_other 13.554 r_scangle_other 11.964 r_mcbond_it 8.119 r_mcbond_other 8.117 r_dihedral_angle_1_deg 7.379 r_scbond_other 6.87 r_scbond_it 6.869 r_angle_refined_deg 1.452 r_angle_other_deg 1.152 r_chiral_restr 0.056 r_bond_refined_d 0.006 r_gen_planes_refined 0.005 r_bond_other_d 0.003 r_gen_planes_other 0.003 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 45048 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing