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E. Coli Pyruvate Dehydrogenase E1 Component (Apoenzyme)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1L8A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 291 PEG2000 MONOMETHYL ETHER, 2-PROPANOL, SODIUM AZIDE, HEPES BUFFER, PH 7.00, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291K
Crystal Properties Matthews coefficient Solvent content 2.3 46.48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 81.61 α = 90 b = 140.63 β = 102.87 c = 81.91 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 93 AREA DETECTOR SIEMENS HI-STAR OSMIC MIRRORS 2001-02-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.5418
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 2.31 34.62 90.5 0.06 24.01 2.85 71391 71362 11.8
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.31 2.4 44.1 6.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 DIFFERENCE FOURIER THROUGHOUT 1L8A 2.32 34.62 1 70895 70893 3588 91.7 0.234 0.212 0.212 0.2135 0.281 0.2837 RANDOM 15.37
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 -1.99 -0.86 1.14
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 22.7 c_scangle_it 5.301 c_scbond_it 4.77 c_mcangle_it 3.945 c_mcbond_it 3.041 c_angle_deg 1.546 c_improper_angle_d 0.95 c_bond_d 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12702 Nucleic Acid Atoms Solvent Atoms 448 Heterogen Atoms
Software Software Software Name Purpose X-GEN data scaling FBSCALE data reduction PHASES phasing CNS refinement X-GEN data reduction FBSCALE data scaling