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Crystal structure of Staphylococcus aureus biotin protein ligase in complex with biotinyl-5'-AMP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 277 10% PEG 8000, 10% glycerol, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.81 67.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 93.665 α = 90 b = 93.665 β = 90 c = 131.947 γ = 90
Symmetry Space Group P 42 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 277 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX1 1.518 Australian Synchrotron MX1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.6 39.55
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 2.6 29.59 25288 1359 100 0.17716 0.17417 0.2166 0.23478 0.2286 RANDOM 49.98
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] -0.12 -0.12 0.25
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.804 r_dihedral_angle_4_deg 24.573 r_dihedral_angle_3_deg 16.222 r_dihedral_angle_1_deg 6.987 r_scangle_it 3.259 r_mcangle_it 2.732 r_scbond_it 2.144 r_angle_refined_deg 1.826 r_mcbond_it 1.758 r_nbtor_refined 0.301
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.804 r_dihedral_angle_4_deg 24.573 r_dihedral_angle_3_deg 16.222 r_dihedral_angle_1_deg 6.987 r_scangle_it 3.259 r_mcangle_it 2.732 r_scbond_it 2.144 r_angle_refined_deg 1.826 r_mcbond_it 1.758 r_nbtor_refined 0.301 r_nbd_refined 0.2 r_symmetry_hbond_refined 0.183 r_xyhbond_nbd_refined 0.172 r_symmetry_vdw_refined 0.16 r_chiral_restr 0.118 r_bond_refined_d 0.018 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2611 Nucleic Acid Atoms Solvent Atoms 305 Heterogen Atoms 38
Software Software Software Name Purpose REFMAC refinement