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Crystal structure of acetylpolyamine aminohydrolase from Burkholderia pseudomallei, iodide soak
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.3 290 EBS Wizard screen B1: 1.26M ammonium sulphate, 100mM cacodylate pH 6.5; protein at 7.9mg/ml; 1h soak in 1.4M ammonium sulphate, 100mM cacodylate pH 6.5, 200mM NaI, VAPOR DIFFUSION, SITTING DROP, temperature 290K
Crystal Properties Matthews coefficient Solvent content 2.14 42.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.7 α = 90 b = 162.12 β = 90 c = 173.07 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 CCD RIGAKU SATURN 944 VariMax 2010-01-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.2 50 98.1 0.102 20.1 12.8 66538 65263 -3 32.72
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.26 84 0.484 3.8 6.4 4850
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 2.2 50 66538 65263 3315 98.1 0.182 0.179 0.1791 0.237 0.2343 RANDOM 23.25
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] 3.67 -1.96 -1.71
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.44 r_dihedral_angle_4_deg 19.393 r_dihedral_angle_3_deg 14.026 r_dihedral_angle_1_deg 6.279 r_scangle_it 3.245 r_scbond_it 2.086 r_angle_refined_deg 1.449 r_mcangle_it 1.2 r_angle_other_deg 0.969 r_mcbond_it 0.673
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.44 r_dihedral_angle_4_deg 19.393 r_dihedral_angle_3_deg 14.026 r_dihedral_angle_1_deg 6.279 r_scangle_it 3.245 r_scbond_it 2.086 r_angle_refined_deg 1.449 r_mcangle_it 1.2 r_angle_other_deg 0.969 r_mcbond_it 0.673 r_mcbond_other 0.17 r_chiral_restr 0.088 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10236 Nucleic Acid Atoms Solvent Atoms 516 Heterogen Atoms 73
Software Software Software Name Purpose StructureStudio data collection PHASER phasing REFMAC refinement XDS data reduction XSCALE data scaling