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Crystal Structure of the N-terminal domain of an HSP90 from Trypanosoma Brucei, Tb10.26.1080 in the presence of a thienopyrimidine derivative
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3O6O PDB entry 3O6O
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293 25% PEG 3350
0.2 M Ammonium Acetate
0.1 M Hepes pH 7.5
4 mM MgCl2
2 mM TCEP
2 mM DDU101329, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.22 44.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.044 α = 90 b = 60.941 β = 90 c = 126.996 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 x-ray 100 IMAGE PLATE RIGAKU RAXIS IV 2010-07-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E+ SUPERBRIGHT 1.5418
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 2.15 35 97.8 0.071 12.6 6.7 26165 25590 1 1 38.1
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) 2.15 2.19 97.1 0.724 3.05 6.6 1252
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 PDB entry 3O6O 2.15 28.16 26160 25447 1298 97.27 0.2264 0.2239 0.2489 0.273 0.2892 RANDOM 41.707
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] -2.44 1.2 1.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.388 r_dihedral_angle_4_deg 16.939 r_dihedral_angle_3_deg 14.404 r_dihedral_angle_1_deg 5.517 r_scangle_it 1.981 r_angle_refined_deg 1.236 r_scbond_it 1.208 r_mcangle_it 0.712 r_mcbond_it 0.37 r_chiral_restr 0.083
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.388 r_dihedral_angle_4_deg 16.939 r_dihedral_angle_3_deg 14.404 r_dihedral_angle_1_deg 5.517 r_scangle_it 1.981 r_angle_refined_deg 1.236 r_scbond_it 1.208 r_mcangle_it 0.712 r_mcbond_it 0.37 r_chiral_restr 0.083 r_bond_refined_d 0.009 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3108 Nucleic Acid Atoms Solvent Atoms 96 Heterogen Atoms 62
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction