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A multi-component acyltransferase PhlABC from Pseudomonas protegens
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1TVZ 1tvz, 3zbg experimental model PDB 3ZBG 1tvz, 3zbg
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 289 12 mg mL-1 protein solution
Index screen crystallization condition #91 (0.15 M, DL-malic acid pH 7.0, 20% w/v polyethylene glycol 3,350)
Crystal Properties Matthews coefficient Solvent content 4.35 71.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 222.626 α = 90 b = 222.626 β = 90 c = 237.099 γ = 120
Symmetry Space Group P 61 2 2
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 6M-F 2015-11-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.8726 ESRF ID23-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim 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 2.83 49.862 100 0.255 0.271 0.98 7.87 8.5 82036
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.83 2.94 98 0.891 0.271 0.67 2.23 8.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 1tvz, 3zbg 2.83 49.862 77934 4102 99.71 0.1689 0.16748 0.1744 0.19618 0.2001 RANDOM 35.211
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] 0.43 0.21 0.43 -1.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.641 r_dihedral_angle_4_deg 15.82 r_dihedral_angle_3_deg 14.111 r_dihedral_angle_1_deg 5.758 r_long_range_B_refined 4.504 r_long_range_B_other 4.494 r_scangle_other 2.586 r_mcangle_it 1.847 r_mcangle_other 1.847 r_scbond_it 1.539
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.641 r_dihedral_angle_4_deg 15.82 r_dihedral_angle_3_deg 14.111 r_dihedral_angle_1_deg 5.758 r_long_range_B_refined 4.504 r_long_range_B_other 4.494 r_scangle_other 2.586 r_mcangle_it 1.847 r_mcangle_other 1.847 r_scbond_it 1.539 r_scbond_other 1.534 r_angle_refined_deg 1.282 r_mcbond_it 1.09 r_mcbond_other 1.09 r_angle_other_deg 0.953 r_chiral_restr 0.073 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13606 Nucleic Acid Atoms Solvent Atoms 399 Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing