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Crystal structure of AerE from Microcystis aeruginosa
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3H7J
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 285 0.2M ammonium acetate, 0.1M sodium acetate dihydrate pH 5.6, 20%(w/v) PEG 4000
Crystal Properties Matthews coefficient Solvent content 1.92 36.07
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.77 α = 90 b = 62.133 β = 90 c = 87.401 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 ADSC QUANTUM 315r 2014-12-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U1 0.97907 SSRF BL17U1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) 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 50 99.4 0.071 0.031 27.3 6.6 25640 19.3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.6 1.63 99.3 0.683 0.292 3.5 6.4
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 3H7J 1.6 45 24277 1303 99.34 0.16557 0.16336 0.1752 0.2077 0.214 RANDOM 28.453
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] -1.18 0.46 0.72
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.919 r_sphericity_free 18.221 r_dihedral_angle_3_deg 13.714 r_sphericity_bonded 11.607 r_rigid_bond_restr 10.523 r_dihedral_angle_4_deg 10.233 r_dihedral_angle_1_deg 6.194 r_long_range_B_refined 5.012 r_long_range_B_other 4.948 r_scangle_other 4.56
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.919 r_sphericity_free 18.221 r_dihedral_angle_3_deg 13.714 r_sphericity_bonded 11.607 r_rigid_bond_restr 10.523 r_dihedral_angle_4_deg 10.233 r_dihedral_angle_1_deg 6.194 r_long_range_B_refined 5.012 r_long_range_B_other 4.948 r_scangle_other 4.56 r_scbond_it 3.696 r_scbond_other 3.696 r_mcangle_other 3.652 r_mcangle_it 3.642 r_mcbond_other 3.09 r_mcbond_it 3.076 r_angle_other_deg 2.766 r_angle_refined_deg 1.544 r_chiral_restr 0.092 r_bond_refined_d 0.011 r_gen_planes_other 0.007 r_gen_planes_refined 0.006 r_bond_other_d 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1620 Nucleic Acid Atoms Solvent Atoms 108 Heterogen Atoms 8
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing