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Crystal Structure of Rhodesain in complex with a Macrolactam Inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2P7U
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 293.15 1.3 - 1.7 M ammonium sulfate
100 mM sodium citrate pH 5.0
growth in 4-8 weeks
Crystal Properties Matthews coefficient Solvent content 2.17 43.21
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 31.83 α = 103.56 b = 49.753 β = 98.89 c = 67.569 γ = 100.81
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 2013-11-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.97625 ESRF ID29
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 47.03 94.3 0.072 0.085 0.044 10.3 3.6 48169
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.6 1.69 93.1 0.82 0.96 0.496 1.9 3.6
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 2P7U 1.6 47.03 45725 2443 94.29 0.1384 0.1363 0.139 0.1766 0.1803 RANDOM 25.444
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] 0.71 1.03 -0.75 0.6 -0.23 -1.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.925 r_dihedral_angle_4_deg 23.337 r_dihedral_angle_3_deg 13.01 r_dihedral_angle_1_deg 5.848 r_angle_refined_deg 1.89 r_angle_other_deg 1.457 r_chiral_restr 0.12 r_bond_refined_d 0.022 r_gen_planes_refined 0.01 r_bond_other_d 0.003
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.925 r_dihedral_angle_4_deg 23.337 r_dihedral_angle_3_deg 13.01 r_dihedral_angle_1_deg 5.848 r_angle_refined_deg 1.89 r_angle_other_deg 1.457 r_chiral_restr 0.12 r_bond_refined_d 0.022 r_gen_planes_refined 0.01 r_bond_other_d 0.003 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3234 Nucleic Acid Atoms Solvent Atoms 361 Heterogen Atoms 140
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction SCALA data scaling PHASER phasing