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E. coli LptB in complex with ADP and novobiocin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4P32
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 298 100mM MES pH = 6.5, 30% PEG4000
Crystal Properties Matthews coefficient Solvent content 2.03 34.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 190.319 α = 90 b = 35.1 β = 91.52 c = 63.05 γ = 90
Symmetry Space Group C 1 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 PIXEL DECTRIS EIGER X 16M 2015-06-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-E 0.97918 APS 24-ID-E
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 63.03 99.4 0.128 0.151 0.08 0.994 8.7 3.5 28485 16.33
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.05 99.2 0.622 0.734 0.385 0.606 3.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 FREE R-VALUE 4P32 2 63.028 1.98 28479 1422 99.07 0.1815 0.1794 0.1811 0.2203 0.2211 random selection 20.6277
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 f_dihedral_angle_d 14.378 f_angle_d 0.747 f_chiral_restr 0.047 f_bond_d 0.007 f_plane_restr 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3577 Nucleic Acid Atoms Solvent Atoms 101 Heterogen Atoms 216
Software Software Software Name Purpose MOSFLM data collection Aimless data scaling PHASER phasing PHENIX refinement PDB_EXTRACT data extraction Aimless data reduction Coot model building