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Compressed conformation of Francisella tularensis ClpP at 2.84 A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3P2L PDB ENTRY 3P2L
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 RATIO 1:1, 293K, SITTING DROP. RESERVOIR CONDITION: 0.2 M NACL, 30% (V/V) MPD AND 0.1 M SODIUM ACETATE PH 4.6
Crystal Properties Matthews coefficient Solvent content 2.2 45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 113.461 α = 90 b = 125.94 β = 90 c = 96.95 γ = 90
Symmetry Space Group P 21 21 2
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 CCD MIRRORS M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF
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 2.84 96.95 97.8 0.1 5.9 2.8 32741
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 2.84 2.97 98.8 0.34 2.2 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 3P2L 2.84 96.95 31087 1635 97.38 0.25239 0.24859 0.2496 0.32604 0.3234 RANDOM 36.592
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] -2.13 1.28 0.85
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.202 r_dihedral_angle_3_deg 16.957 r_dihedral_angle_4_deg 14.512 r_dihedral_angle_1_deg 7.288 r_mcangle_it 2.377 r_scangle_it 1.817 r_mcbond_it 1.332 r_mcbond_other 1.331 r_angle_refined_deg 1.243 r_scbond_it 0.989
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.202 r_dihedral_angle_3_deg 16.957 r_dihedral_angle_4_deg 14.512 r_dihedral_angle_1_deg 7.288 r_mcangle_it 2.377 r_scangle_it 1.817 r_mcbond_it 1.332 r_mcbond_other 1.331 r_angle_refined_deg 1.243 r_scbond_it 0.989 r_angle_other_deg 0.914 r_symmetry_vdw_refined 0.214 r_nbd_refined 0.169 r_symmetry_vdw_other 0.165 r_nbtor_refined 0.158 r_nbd_other 0.135 r_xyhbond_nbd_refined 0.116 r_symmetry_hbond_refined 0.078 r_nbtor_other 0.072 r_chiral_restr 0.068 r_xyhbond_nbd_other 0.02 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.001 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 9309 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction Aimless data scaling PHASER phasing