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Neutron crystal structure of the oxidized form of b5R at pD 6.5
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5GV8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293 12% PEG 3350, 10mM potassium phosphate pD 6.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 48.628 α = 90 b = 72.233 β = 90 c = 85.08 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 neutron 100 DIFFRACTOMETER iBIX 2014-05-24 L LAUE
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SPALLATION SOURCE J-PARC MLF BEAMLINE BL-03 2.6-4.4 JPARC MLF BL-03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.6 20 96.2 0.194 0.104 0.98 6.6 4.1 38402 9.8
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.6 1.69 93.1 0.509 0.318 0.758 2.2 3.1
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 (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B NEUTRON DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.6 16.44 38394 1971 95.39 0.1801 0.1789 0.2015 Select the same reflections as PDB code 5GV8 13.63
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 17.442 f_angle_d 1.52 f_chiral_restr 0.083 f_bond_d 0.02 f_plane_restr 0.011