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Crystal Structure of the MurT-GatD Enzyme Complex from Staphylococcus aureus COL strain
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6GS2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 30 % (w/v) PEG 4,000, 100 mM Tris-HCl pH 8.5 and 200 mM MgCl2;
Crystal Properties Matthews coefficient Solvent content 2.09 42.76
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 107.094 α = 90 b = 111.094 β = 90 c = 112.424 γ = 90
Symmetry Space Group P 21 21 21
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 PILATUS 2M 2018-07-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 0.8731 ESRF ID23-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 2.9 49.31 99.99 0.113 0.99 6.7 6.9 30388 62.9479579287
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.9 3.06 100 0.696 0.58 17 7.4
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 6GS2 2.90001720351 49.3089437971 1.33648315019 30292 1492 99.7398834414 0.2407687704 0.239532981111 0.2388 0.264522858175 0.2659 Random selection 73.5780373074
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 13.4306144973 f_angle_d 0.485692175315 f_chiral_restr 0.0431131845102 f_plane_restr 0.00437021896974 f_bond_d 0.00189648295016
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10056 Nucleic Acid Atoms Solvent Atoms 75 Heterogen Atoms 3
Software Software Software Name Purpose PHENIX refinement XDS data reduction Aimless data scaling PHASER phasing