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Carbon regulatory PII-like protein SbtB from Synechocystis sp. 6803 in complex with ATP resulting from short ATP soak, conflicting T-loop and C-loop with partial occupancy
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5O3P
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 294 0.2M SODIUM ACETATE, 0.1M HEPES PH 7.5, 20% (W/V) PEG 3000
Crystal Properties Matthews coefficient Solvent content 2.41 48.94
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.833 α = 90 b = 63.833 β = 90 c = 81.231 γ = 120
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 2016-10-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 1.000 SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 2.15 32.73 99.6 0.044 1 27 10.2 20143
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.15 2.25 1.395 0.751
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 (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS THROUGHOUT 5O3P 2.15 32.73 19135 1007 99.45 0.1817 0.1801 0.2122 0.2106 RANDOM 70.172
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] 1.04 0.52 1.04 -3.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.786 r_dihedral_angle_4_deg 24.556 r_dihedral_angle_3_deg 15.867 r_dihedral_angle_1_deg 6.272 r_angle_refined_deg 1.957 r_angle_other_deg 1.343 r_chiral_restr 0.098 r_bond_refined_d 0.017 r_gen_planes_refined 0.009 r_bond_other_d 0.007
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.786 r_dihedral_angle_4_deg 24.556 r_dihedral_angle_3_deg 15.867 r_dihedral_angle_1_deg 6.272 r_angle_refined_deg 1.957 r_angle_other_deg 1.343 r_chiral_restr 0.098 r_bond_refined_d 0.017 r_gen_planes_refined 0.009 r_bond_other_d 0.007 r_gen_planes_other 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2320 Nucleic Acid Atoms Solvent Atoms 36 Heterogen Atoms 95
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction XDS data scaling