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The 1.7A Crystal Structure of a Thioredoxin-like Protein from Aeropyrum pernix
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 4.6 277 3.5M Sodium formate, 0.1M Sodium acetate, pH 4.6, vapor diffusion, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.32 47.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.742 α = 90 b = 74.742 β = 90 c = 59.451 γ = 90
Symmetry Space Group P 43 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 ADSC QUANTUM 315r 2009-04-21 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97926 APS 19-ID
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 1.65 50 99.4 0.088 13 9.3 20769
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 1.65 1.71 100 0.752 9.5 2046
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION THROUGHOUT 1.7 27.62 18952 978 99.35 0.196 0.194 0.232 0.2888 RANDOM 16.861
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 36.422 r_dihedral_angle_4_deg 15.427 r_dihedral_angle_3_deg 13.366 r_dihedral_angle_1_deg 5.361 r_scangle_it 2.79 r_scbond_it 2.098 r_angle_refined_deg 1.198 r_mcangle_it 0.981 r_mcbond_it 0.555 r_chiral_restr 0.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.422 r_dihedral_angle_4_deg 15.427 r_dihedral_angle_3_deg 13.366 r_dihedral_angle_1_deg 5.361 r_scangle_it 2.79 r_scbond_it 2.098 r_angle_refined_deg 1.198 r_mcangle_it 0.981 r_mcbond_it 0.555 r_chiral_restr 0.08 r_bond_refined_d 0.011 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1245 Nucleic Acid Atoms Solvent Atoms 130 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction SBC-Collect data collection HKL-3000 data reduction HKL-3000 data scaling HKL-3000 phasing SHELX phasing MLPHARE phasing DM phasing ARP/wARP model building Coot model building