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Low Temperature Structure of P22 Tailspike Protein Fragment (109-666), Mutant V450A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2VFO PDB ENTRY 2VFO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 10 DROP: 2 MICROLITER 1.5 M AMMONIUM SULFATE, 0.1 M SODIUM PHOSPHATE, PH 10.0, PLUS 3.3 MICROLITER 10 MG/ML PROTEIN SOLUTION IN 10 MM HEPES, PH 7.0; RESERVOIR: 750 MICOLITER 1.0 M AMMONIUM SULFATE, 0.1 M SODIUM PHOSPHATE, PH 10.0
Crystal Properties Matthews coefficient Solvent content 2.4 48.76
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 119.99 α = 90 b = 119.99 β = 90 c = 119.99 γ = 90
Symmetry Space Group P 21 3
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 MARRESEARCH MIRRORS 2006-10-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 BESSY 14.1
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 1.59 50 88.9 0.04 46.2 10.9 50813 15.5
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 1.59 1.7 58.3 0.07 23 7.7
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 2VFO 1.55 30 54475 2898 68.8 0.116 0.114 0.1278 0.145 0.1542 RANDOM 9.61
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_dihedral_angle_2_deg 35.299 r_dihedral_angle_4_deg 13.778 r_dihedral_angle_3_deg 11.629 r_dihedral_angle_1_deg 6.629 r_scangle_it 4.3 r_scbond_it 2.995 r_mcangle_it 1.929 r_mcbond_it 1.391 r_angle_refined_deg 1.213 r_angle_other_deg 1.059
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.299 r_dihedral_angle_4_deg 13.778 r_dihedral_angle_3_deg 11.629 r_dihedral_angle_1_deg 6.629 r_scangle_it 4.3 r_scbond_it 2.995 r_mcangle_it 1.929 r_mcbond_it 1.391 r_angle_refined_deg 1.213 r_angle_other_deg 1.059 r_symmetry_vdw_other 0.213 r_nbd_other 0.199 r_nbd_refined 0.191 r_nbtor_refined 0.17 r_symmetry_vdw_refined 0.165 r_symmetry_hbond_refined 0.141 r_xyhbond_nbd_refined 0.126 r_nbtor_other 0.081 r_chiral_restr 0.074 r_bond_refined_d 0.011 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_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 4212 Nucleic Acid Atoms Solvent Atoms 813 Heterogen Atoms 35
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing