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Pyrococcus horikoshii TET1 peptidase can assemble into a tetrahedron or a large octahedral shell
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1VHE PDB ENTRY 1VHE
Crystallization Crystal Properties Matthews coefficient Solvent content 2.7 52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 221.88 α = 90 b = 221.88 β = 90 c = 221.88 γ = 90
Symmetry Space Group F 41 3 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 ADSC CCD M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 ESRF ID14-4
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 3.08 26.91 95.2 0.07 31 22 8651 79.9
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 3.08 3.25 75.8 0.22 5 9
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 1VHE 3.08 26.91 8651 458 95.2 0.256 0.256 0.2427 0.332 0.3144 RANDOM 60.6
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 c_dihedral_angle_d 26.5 c_angle_deg 1.6 c_mcangle_it 1.41 c_improper_angle_d 0.87 c_mcbond_it 0.75 c_scangle_it 0.62 c_scbond_it 0.22 c_bond_d 0.014 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 26.5 c_angle_deg 1.6 c_mcangle_it 1.41 c_improper_angle_d 0.87 c_mcbond_it 0.75 c_scangle_it 0.62 c_scbond_it 0.22 c_bond_d 0.014 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2588 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 2
Software Software Software Name Purpose CNS refinement XDS data reduction SELDAT data scaling SCALKB2 data scaling KBAPLY data scaling PHASER phasing