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Crystal structure of the PDHK2-L2 complex.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.3 293 0.1 M sodium acetate (pH 5.3) and 0.5 M sodium formate, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.82 56.42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.413 α = 90 b = 121.63 β = 97.29 c = 71.452 γ = 90
Symmetry Space Group P 1 21 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 MARMOSAIC 300 mm CCD 2006-09-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.000 APS 22-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 2.61 70.89 90.6 0.039 20.3 32860
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 2.61 2.9 64.5 0.29 2.73
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.61 50 32859 1641 89.65 0.223 0.2205 0.2205 0.274 0.2714 RANDOM 48.907
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] -0.28 -0.13 1.97 -1.72
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.935 r_dihedral_angle_4_deg 18.779 r_dihedral_angle_3_deg 17.619 r_dihedral_angle_1_deg 5.507 r_scangle_it 1.187 r_angle_refined_deg 1.089 r_scbond_it 0.72 r_mcangle_it 0.652 r_mcbond_it 0.355 r_nbtor_refined 0.305
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.935 r_dihedral_angle_4_deg 18.779 r_dihedral_angle_3_deg 17.619 r_dihedral_angle_1_deg 5.507 r_scangle_it 1.187 r_angle_refined_deg 1.089 r_scbond_it 0.72 r_mcangle_it 0.652 r_mcbond_it 0.355 r_nbtor_refined 0.305 r_metal_ion_refined 0.222 r_symmetry_hbond_refined 0.219 r_symmetry_vdw_refined 0.217 r_nbd_refined 0.202 r_xyhbond_nbd_refined 0.137 r_chiral_restr 0.068 r_bond_refined_d 0.007 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7459 Nucleic Acid Atoms Solvent Atoms 142 Heterogen Atoms 66
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling COMO phasing REFMAC refinement PDB_EXTRACT data extraction