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Crystal structure of RimK from Pseudomonas syringae DC3000
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4IWX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 293 NULL
Crystal Properties Matthews coefficient Solvent content 2.66 53.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 95.905 α = 88.94 b = 96.091 β = 84.37 c = 156.992 γ = 89.97
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 PILATUS3 6M 2017-04-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9763 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 2.9 49.8 98.9 0.161 0.192 0.102 0.983 5.8 3.4 122285 47.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.9 2.95 98.6 0.976 1.174 0.644 0.43 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 4IWX 2.9 49.8 116340 5892 98.9 0.2377 0.2372 0.2396 0.2479 0.2506 RANDOM 61.215
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] -1.21 -0.19 -0.27 -2.52 0.43 3.62
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.826 r_dihedral_angle_4_deg 20.179 r_dihedral_angle_3_deg 16.57 r_dihedral_angle_1_deg 6.67 r_angle_refined_deg 1.296 r_angle_other_deg 1.09 r_chiral_restr 0.04 r_bond_refined_d 0.004 r_gen_planes_refined 0.004 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.826 r_dihedral_angle_4_deg 20.179 r_dihedral_angle_3_deg 16.57 r_dihedral_angle_1_deg 6.67 r_angle_refined_deg 1.296 r_angle_other_deg 1.09 r_chiral_restr 0.04 r_bond_refined_d 0.004 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 33996 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 297
Software Software Software Name Purpose Aimless data scaling REFMAC refinement PDB_EXTRACT data extraction DIALS data reduction PHASER phasing