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Diaminobutyrate acetyltransferase EctA from Paenibacillus lautus in complex with its product ADABA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6SLK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 285 0.17 M ammonium sulphate, 0.085 M MES pH 6.5, 25.5 % (w/v) PEG 5000 MME, 15 % (v/v) glycerol, 20 mM N-gamma-acetyl-2,4-diaminobutyrate
Crystal Properties Matthews coefficient Solvent content 4.1 70
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 174.214 α = 90 b = 174.214 β = 90 c = 60.991 γ = 90
Symmetry Space Group P 41 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 100 PIXEL DECTRIS PILATUS 6M-F 2017-03-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.9763 ESRF ID23-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.02 123.2 99.4 0.088 16.75 11.67 61331
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.02 2.15 96.3 1.08 2.46 11.07
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-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 6SLK 2.2 123.19 46615 1568 99.95 0.1687 0.1674 0.207 RANDOM 43.688
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 r_dihedral_angle_2_deg 33.138 r_dihedral_angle_4_deg 21.077 r_dihedral_angle_3_deg 14.953 r_dihedral_angle_1_deg 7.104 r_angle_refined_deg 2.145 r_angle_other_deg 1.145 r_chiral_restr 0.146 r_bond_refined_d 0.021 r_gen_planes_refined 0.01 r_bond_other_d 0.003
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.138 r_dihedral_angle_4_deg 21.077 r_dihedral_angle_3_deg 14.953 r_dihedral_angle_1_deg 7.104 r_angle_refined_deg 2.145 r_angle_other_deg 1.145 r_chiral_restr 0.146 r_bond_refined_d 0.021 r_gen_planes_refined 0.01 r_bond_other_d 0.003 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3931 Nucleic Acid Atoms Solvent Atoms 220 Heterogen Atoms 59
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data scaling PHASER phasing XDS data reduction