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PA3825-EAL Mn-pGpG Structure
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4Y9M
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.2 277 6-11% isopropanol, 0.1 M MES pH 6.5, 0.1 M sodium acetate pH 4.5 and 0.2 M MnCl2
Crystal Properties Matthews coefficient Solvent content 2.52 51.26
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.78 α = 90 b = 64.78 β = 90 c = 135.787 γ = 90
Symmetry Space Group P 43 21 2
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 2014-08-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 1.8785 Diamond I02
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.15 27.16 98.8 6.6 3.8 16288
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 4Y9M 2.15 26.66 15439 808 98.84 0.2051 0.2021 0.2076 0.2612 0.2549 RANDOM 36.452
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] 1.29 1.29 -2.58
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.735 r_dihedral_angle_4_deg 17.012 r_dihedral_angle_3_deg 13.728 r_dihedral_angle_1_deg 6.365 r_mcangle_it 5.387 r_mcbond_other 3.36 r_mcbond_it 3.358 r_angle_refined_deg 1.713 r_angle_other_deg 1.034 r_chiral_restr 0.103
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.735 r_dihedral_angle_4_deg 17.012 r_dihedral_angle_3_deg 13.728 r_dihedral_angle_1_deg 6.365 r_mcangle_it 5.387 r_mcbond_other 3.36 r_mcbond_it 3.358 r_angle_refined_deg 1.713 r_angle_other_deg 1.034 r_chiral_restr 0.103 r_bond_refined_d 0.016 r_gen_planes_refined 0.009 r_bond_other_d 0.006 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1986 Nucleic Acid Atoms Solvent Atoms 118 Heterogen Atoms 49
Software Software Software Name Purpose REFMAC refinement Aimless data scaling PDB_EXTRACT data extraction xia2 data reduction MOLREP phasing