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Crystal structure of a putative arginate lyase from Staphylococcus haemolyticus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 8 294 100mM Tris HCl pH 8.0, 29% PEG 3350, 200mM magnesium chloride, vapor diffusion, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.34 47.38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.198 α = 90 b = 93.552 β = 98.86 c = 83.24 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 MAR CCD 165 mm 2008-11-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 31-ID 0.97958 APS 31-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.6 82.246 99.8 0.096 0.096 8.9 5.2 94084 93896 21.9
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.6 1.69 100 0.495 0.495 2.2 5.1 13722
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 1.6 20 93999 93820 4700 99.81 0.237 0.235 0.2302 0.275 0.2667 RANDOM 28.707
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] 2.35 0.42 -0.63 -1.59
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.3 r_dihedral_angle_4_deg 21.04 r_dihedral_angle_3_deg 13.914 r_dihedral_angle_1_deg 5.843 r_scangle_it 4.181 r_scbond_it 2.607 r_mcangle_it 1.58 r_angle_refined_deg 1.534 r_mcbond_it 0.938 r_chiral_restr 0.105
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.3 r_dihedral_angle_4_deg 21.04 r_dihedral_angle_3_deg 13.914 r_dihedral_angle_1_deg 5.843 r_scangle_it 4.181 r_scbond_it 2.607 r_mcangle_it 1.58 r_angle_refined_deg 1.534 r_mcbond_it 0.938 r_chiral_restr 0.105 r_bond_refined_d 0.016 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5207 Nucleic Acid Atoms Solvent Atoms 585 Heterogen Atoms 3
Software Software Software Name Purpose SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction MAR345 data collection MOSFLM data reduction SHELXCD phasing SHELXE model building