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Crystal structure of NADPH bound AerF from Microcystis aeruginosa
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6JH7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 285 0.1 M Na HEPES pH7.5, 25 % (w/v) PEG2000 MME
Crystal Properties Matthews coefficient Solvent content 2.46 50.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.625 α = 90 b = 101.625 β = 90 c = 115.65 γ = 90
Symmetry Space Group P 43 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 CCD ADSC QUANTUM 315r 2016-04-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U1 0.97923 SSRF BL17U1
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 1.78 50 98.8 0.074 35.451 10.3 57850
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 1.78 1.81 99.7 0.97 3.165
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 6JH7 1.78 50 54164 2877 97.5 0.19118 0.18915 0.1988 0.23094 0.2415 RANDOM 29.518
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] 0.09 0.09 -0.18
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.777 r_dihedral_angle_4_deg 21.93 r_dihedral_angle_3_deg 14.649 r_long_range_B_refined 6.166 r_long_range_B_other 6.166 r_dihedral_angle_1_deg 5.896 r_scangle_other 4.458 r_mcangle_it 3.066 r_mcangle_other 3.066 r_scbond_it 2.932
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.777 r_dihedral_angle_4_deg 21.93 r_dihedral_angle_3_deg 14.649 r_long_range_B_refined 6.166 r_long_range_B_other 6.166 r_dihedral_angle_1_deg 5.896 r_scangle_other 4.458 r_mcangle_it 3.066 r_mcangle_other 3.066 r_scbond_it 2.932 r_scbond_other 2.932 r_mcbond_it 2.223 r_mcbond_other 2.217 r_angle_refined_deg 1.685 r_angle_other_deg 0.876 r_chiral_restr 0.1 r_bond_refined_d 0.014 r_gen_planes_refined 0.007 r_bond_other_d 0.002 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 3757 Nucleic Acid Atoms Solvent Atoms 258 Heterogen Atoms 104
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing