☰ Navigation Tabs
Transcription factor BARHL2 bound to TAAGT DNA sequence
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8PM5 chain A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.8 293 PEG 4000, sodium malonate, sodium acetate
Crystal Properties Matthews coefficient Solvent content 2.46 52.32
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.519 α = 90 b = 123.711 β = 93.94 c = 62.365 γ = 90
Symmetry Space Group P 1 21 1
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 2022-04-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.8856 ESRF ID23-1
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 2.05 43.87 99.6 0.17 0.19 0.083 0.993 7.7 5.2 37375
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 2.05 2.11 97.1 2.305 2.599 1.176 0.188 4.8
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 MOLECULAR REPLACEMENT THROUGHOUT 2.05 39.46 35433 1912 99.6 0.2337 0.232 0.2382 0.2672 0.2731 RANDOM 41.355
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] -1.07 -0.35 1.18 -0.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.717 r_dihedral_angle_4_deg 19.324 r_dihedral_angle_3_deg 15.121 r_dihedral_angle_1_deg 8.041 r_angle_refined_deg 2.397 r_angle_other_deg 1.183 r_chiral_restr 0.204 r_gen_planes_refined 0.013 r_bond_refined_d 0.012 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.717 r_dihedral_angle_4_deg 19.324 r_dihedral_angle_3_deg 15.121 r_dihedral_angle_1_deg 8.041 r_angle_refined_deg 2.397 r_angle_other_deg 1.183 r_chiral_restr 0.204 r_gen_planes_refined 0.013 r_bond_refined_d 0.012 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2085 Nucleic Acid Atoms 1944 Solvent Atoms 351 Heterogen Atoms
Software Software Software Name Purpose XDS data reduction Aimless data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction