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Crystal Structure of Thermobifida fusca Protease A (TFPA)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other 2.1A structure of TFPA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 298 8% (v/v) glycerol, 10mM MnCl2, 0.15M AmSO4, 0.1M Tris, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.34 47.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 130.959 α = 90 b = 68.552 β = 101.98 c = 40.355 γ = 90
Symmetry Space Group C 1 2 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 ADSC QUANTUM 315 2004-05-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 0.95 ALS 8.2.2
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 1.436 50 96.9 0.076 15.52 4 63419 61453 -3
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 1.436 1.46 87.8 0.352 2.6 2.5 2754
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 2.1A structure of TFPA 1.436 15 55164 53796 6073 97.52 0.2048 0.2048 0.20205 0.1996 0.22898 0.2267 RANDOM 8.462
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] 0.2 0.24 -0.21 0.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.133 r_dihedral_angle_4_deg 21.389 r_dihedral_angle_3_deg 10.631 r_dihedral_angle_1_deg 6.029 r_scangle_it 2.523 r_scbond_it 1.774 r_angle_refined_deg 1.329 r_mcangle_it 1.04 r_mcbond_it 0.668 r_nbtor_refined 0.303
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.133 r_dihedral_angle_4_deg 21.389 r_dihedral_angle_3_deg 10.631 r_dihedral_angle_1_deg 6.029 r_scangle_it 2.523 r_scbond_it 1.774 r_angle_refined_deg 1.329 r_mcangle_it 1.04 r_mcbond_it 0.668 r_nbtor_refined 0.303 r_nbd_refined 0.199 r_symmetry_vdw_refined 0.195 r_symmetry_hbond_refined 0.152 r_xyhbond_nbd_refined 0.133 r_chiral_restr 0.085 r_bond_refined_d 0.01 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2638 Nucleic Acid Atoms Solvent Atoms 355 Heterogen Atoms 46
Software Software Software Name Purpose REFMAC refinement CNS refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling CNS phasing