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Structural basis for the target DNA recognition and binding by the MYB domain of phosphate starvation response regulator 1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 289 28%PEG3350 , 0.1M citrate-Na pH 5.5
Crystal Properties Matthews coefficient Solvent content 3.53 64.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.966 α = 90 b = 88.966 β = 90 c = 143.445 γ = 90
Symmetry Space Group P 42 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 EIGER X 16M 2018-06-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U1 0.979 SSRF BL17U1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 2.8 75.61 99.2 0.111 0.116 0.033 0.999 16 12.6 14723
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.8 2.95 99.2 4.072 4.235 1.157 0.619 13.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 THROUGHOUT 2.8 71.72 13959 720 99.05 0.2171 0.2154 0.2153 0.2491 0.249 RANDOM 102.85
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] 6.16 6.16 -12.32
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 23.646 r_dihedral_angle_4_deg 22.941 r_dihedral_angle_3_deg 21.247 r_dihedral_angle_1_deg 5.153 r_angle_refined_deg 1.629 r_chiral_restr 0.088 r_bond_refined_d 0.012 r_gen_planes_refined 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1821 Nucleic Acid Atoms 886 Solvent Atoms 1 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement xia2 data scaling PDB_EXTRACT data extraction xia2 data reduction PHENIX phasing