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2.75 angstrom crystal structure of human NFAT1 with bound DNA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1OWR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 295 0.1 M sodium cacodylate pH 6.0, 8% w/v PEG 8000
Crystal Properties Matthews coefficient Solvent content 3.61 65.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.497 α = 90 b = 94.426 β = 93.568 c = 129.449 γ = 90
Symmetry Space Group I 1 2 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 2022-06-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALBA BEAMLINE XALOC 0.979181 ALBA XALOC
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 2.75 82.242 97.3 0.067 0.088 0.056 0.996 10.5 4.3 30970
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 2.75 2.88 99.9 0.506 0.665 0.427 0.863 2.1 4.3
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 (All) 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 2.75 82.242 30966 1717 97.228 0.219 0.2159 0.2184 0.2728 0.2689 RANDOM 84.321
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] 4.826 6.151 -3.875 -1.705
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 20.182 r_dihedral_angle_3_deg 19.053 r_dihedral_angle_6_deg 14.291 r_lrange_it 10.832 r_lrange_other 10.832 r_dihedral_angle_1_deg 9.033 r_scangle_it 8.377 r_scangle_other 8.376 r_mcangle_it 8.129 r_mcangle_other 8.128
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 20.182 r_dihedral_angle_3_deg 19.053 r_dihedral_angle_6_deg 14.291 r_lrange_it 10.832 r_lrange_other 10.832 r_dihedral_angle_1_deg 9.033 r_scangle_it 8.377 r_scangle_other 8.376 r_mcangle_it 8.129 r_mcangle_other 8.128 r_scbond_it 5.933 r_scbond_other 5.932 r_mcbond_it 5.499 r_mcbond_other 5.497 r_angle_refined_deg 1.835 r_angle_other_deg 0.498 r_nbd_other 0.437 r_symmetry_nbd_refined 0.244 r_symmetry_xyhbond_nbd_refined 0.236 r_symmetry_nbd_other 0.213 r_nbd_refined 0.198 r_nbtor_refined 0.19 r_xyhbond_nbd_refined 0.189 r_ncsr_local_group_1 0.109 r_chiral_restr 0.099 r_symmetry_nbtor_other 0.089 r_ncsr_local_group_2 0.081 r_ncsr_local_group_3 0.066 r_symmetry_xyhbond_nbd_other 0.04 r_chiral_restr_other 0.009 r_gen_planes_refined 0.008 r_bond_refined_d 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4027 Nucleic Acid Atoms 1218 Solvent Atoms 9 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing