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crystal structure of PLAAT4 N-terminal domain
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7ZOM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 293 Morpheus screen condition H12
0.1M Amino acids,
0.1M Tris Bicine pH 8.5
37.5% v/v MPD PEG1000 PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.17 43.27
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 116.8 α = 90 b = 39.54 β = 94.952 c = 52.95 γ = 90
Symmetry Space Group C 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 2M 2016-10-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE MASSIF-1 0.966 ESRF MASSIF-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 1.735 52.752 94.5 0.055 0.066 0.036 0.998 13.8 3.3 23862 20.6
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 1.735 1.765 0.48 0.58 0.322 0.781 2.3
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 7ZOM 1.735 52.752 23861 1151 94.518 0.185 0.184 0.184 0.2009 0.2009 21.369
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] -0.614 0.689 0.585 -0.089
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.452 r_dihedral_angle_4_deg 21.871 r_dihedral_angle_3_deg 12.28 r_lrange_it 8.639 r_scangle_it 7.37 r_dihedral_angle_1_deg 6.674 r_scbond_it 5.182 r_mcangle_it 4.248 r_mcbond_it 3.14 r_angle_refined_deg 1.508
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.452 r_dihedral_angle_4_deg 21.871 r_dihedral_angle_3_deg 12.28 r_lrange_it 8.639 r_scangle_it 7.37 r_dihedral_angle_1_deg 6.674 r_scbond_it 5.182 r_mcangle_it 4.248 r_mcbond_it 3.14 r_angle_refined_deg 1.508 r_nbtor_refined 0.307 r_nbd_refined 0.203 r_xyhbond_nbd_refined 0.157 r_symmetry_nbd_refined 0.148 r_symmetry_xyhbond_nbd_refined 0.134 r_chiral_restr 0.07 r_bond_refined_d 0.014 r_gen_planes_refined 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1872 Nucleic Acid Atoms Solvent Atoms 98 Heterogen Atoms 7
Software Software Software Name Purpose REFMAC refinement autoPROC data reduction Aimless data scaling PHASER phasing