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Structure basis of cellular dNTP regulation, SAMHD1-dGTP-dATP-dTTP/dGTP complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4BZB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 BATCH MODE 298 SPG buffer, PEG 1500
Crystal Properties Matthews coefficient Solvent content 2.16 43.07
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.587 α = 90 b = 140.808 β = 114.94 c = 96.9 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 CCD ADSC QUANTUM 315 2013-10-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-E 0.9792 APS 24-ID-E
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 2.33 50 100 0.155 7.3 8.9 85312
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.35 2.39 100 7.9 4276
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 4BZB 2.33 50 85283 4259 99.38 0.2257 0.2247 0.226 0.2439 0.2431 RANDOM 72.955
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] 1.2 -4.92 3.34 0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.009 r_dihedral_angle_4_deg 16.807 r_dihedral_angle_3_deg 16.325 r_dihedral_angle_1_deg 5.203 r_mcangle_it 4.614 r_mcbond_it 2.887 r_mcbond_other 2.887 r_angle_refined_deg 1.429 r_angle_other_deg 0.93 r_chiral_restr 0.076
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.009 r_dihedral_angle_4_deg 16.807 r_dihedral_angle_3_deg 16.325 r_dihedral_angle_1_deg 5.203 r_mcangle_it 4.614 r_mcbond_it 2.887 r_mcbond_other 2.887 r_angle_refined_deg 1.429 r_angle_other_deg 0.93 r_chiral_restr 0.076 r_bond_refined_d 0.011 r_gen_planes_refined 0.008 r_gen_planes_other 0.006 r_bond_other_d 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 15700 Nucleic Acid Atoms Solvent Atoms 32 Heterogen Atoms 366
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction PDB_EXTRACT data extraction DENZO data reduction SCALEPACK data scaling