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Structure of the N-terminal Class II Aldolase domain of a conserved protein from Thermoplasma acidophilum
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 289 0.1M Bis-Tris Propane pH 7.0, 3.2M NaCl, VAPOR DIFFUSION, SITTING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.53 51.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.136 α = 90 b = 46.136 β = 90 c = 203.998 γ = 120
Symmetry Space Group P 32 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 210r 2009-06-28 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 0.97970, 0.97945 APS 19-BM
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 50 99.7 0.074 12.3 10.6 18049 18049 -3 36.4
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 2.03 99.8 0.622 3.8 10.9 856
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 MAD THROUGHOUT 2 25.89 17900 17900 913 99.82 0.188 0.188 0.186 0.2217 0.233 0.2614 RANDOM 27.496
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] 1.63 0.81 1.63 -2.44
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.871 r_dihedral_angle_4_deg 17.882 r_dihedral_angle_3_deg 15.527 r_dihedral_angle_1_deg 5.52 r_scangle_it 3.393 r_scbond_it 2.263 r_angle_refined_deg 1.497 r_mcangle_it 1.403 r_angle_other_deg 0.922 r_mcbond_it 0.826
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.871 r_dihedral_angle_4_deg 17.882 r_dihedral_angle_3_deg 15.527 r_dihedral_angle_1_deg 5.52 r_scangle_it 3.393 r_scbond_it 2.263 r_angle_refined_deg 1.497 r_mcangle_it 1.403 r_angle_other_deg 0.922 r_mcbond_it 0.826 r_mcbond_other 0.228 r_chiral_restr 0.09 r_bond_refined_d 0.017 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1612 Nucleic Acid Atoms Solvent Atoms 142 Heterogen Atoms 2
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MLPHARE phasing DM phasing REFMAC refinement PDB_EXTRACT data extraction SBC-Collect data collection HKL-3000 data reduction HKL-3000 data scaling HKL-3000 phasing SHELXD phasing SHELXE model building SOLVE phasing RESOLVE phasing ARP/wARP model building CCP4 phasing O model building Coot model building