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Structure of XacCel5A crystallized in the space group P41212
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4W7U
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 20% PEG 3350
0.2 M sodium sulfate
Crystal Properties Matthews coefficient Solvent content 3.04 59.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 123.725 α = 90 b = 123.725 β = 90 c = 59.105 γ = 90
Symmetry Space Group P 41 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 2M 2015-09-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON LNLS BEAMLINE W01B-MX2 1.458 LNLS W01B-MX2
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 2.6 48.97 99.9 0.232 9.54 10.2 14603 -3 34.256
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 2.6 2.76 99.8 0.955 2.33
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 4w7u 2.6 48.97 13858 747 99.91 0.2097 0.2069 0.2633 0.2274 RANDOM 34.021
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] -2.13 -2.13 4.25
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 44.155 r_dihedral_angle_4_deg 16.043 r_dihedral_angle_3_deg 15.057 r_dihedral_angle_1_deg 5.749 r_mcangle_it 1.858 r_angle_refined_deg 1.26 r_scbond_it 1.152 r_mcbond_it 1.037 r_chiral_restr 0.089 r_bond_refined_d 0.008
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 44.155 r_dihedral_angle_4_deg 16.043 r_dihedral_angle_3_deg 15.057 r_dihedral_angle_1_deg 5.749 r_mcangle_it 1.858 r_angle_refined_deg 1.26 r_scbond_it 1.152 r_mcbond_it 1.037 r_chiral_restr 0.089 r_bond_refined_d 0.008 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2466 Nucleic Acid Atoms Solvent Atoms 33 Heterogen Atoms
Software Software Software Name Purpose XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction XDS data reduction MOLREP phasing