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Crystal structure of Schistosoma mansoni HDAC8 complexed with M344
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1T67 PDB ENTRY 1T67
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 0.2 M NA,K L-TARTRATE, 21% (W/V) PEG3350
Crystal Properties Matthews coefficient Solvent content 1.5 19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.557 α = 78.05 b = 70.579 β = 75.41 c = 98.513 γ = 85.49
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 2011-12-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SOLEIL BEAMLINE PROXIMA 1 SOLEIL PROXIMA 1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.65 50 96.9 0.06 29.8 3.3 207485 2 20.76
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.65 1.68 95.5 0.21 4.8 3.3
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 (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 PDB ENTRY 1T67 1.65 24.16 207374 10361 95.83 0.1555 0.1546 0.1515 0.1719 0.1723 RANDOM 24.54
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] -0.963 -0.6229 0.191 -0.0917 1.306 1.0547
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 15.81 t_omega_torsion 3.49 t_angle_deg 0.94 t_bond_d 0.01 t_dihedral_angle_d t_incorr_chiral_ct t_pseud_angle t_trig_c_planes t_gen_planes t_it
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 15.81 t_omega_torsion 3.49 t_angle_deg 0.94 t_bond_d 0.01 t_dihedral_angle_d t_incorr_chiral_ct t_pseud_angle t_trig_c_planes t_gen_planes t_it t_nbd t_improper_torsion t_chiral_improper_torsion t_sum_occupancies t_utility_distance t_utility_angle t_utility_torsion t_ideal_dist_contact
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12994 Nucleic Acid Atoms Solvent Atoms 1171 Heterogen Atoms 272
Software Software Software Name Purpose BUSTER refinement DENZO data reduction SCALEPACK data scaling MOLREP phasing