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Crystal structure of the amino-terminal domain of HSP90 from Leishmania major, LMJF33.0312:M1-K 213 in the presence of 17-AEP-geldanamycin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3H80 PDB entry 3H80
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293 20% PEG 3350, 0.2 M disodium tartrate, 1 mM AEP-GA, 4 mM MgCl2, 2 mM TCEP, Glycerol, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3 59
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 161.341 α = 90 b = 161.341 β = 90 c = 48.142 γ = 90
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 315 2010-10-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97942 APS 19-ID
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 2.65 50 99.6 0.062 8.4 4.9 36754 36607 72.8
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 2.65 2.7 100 0.605 4.9 1810
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 (All) 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 3H80 2.65 24.54 36598 36452 1822 99.44 0.2292 0.2292 0.2267 0.2194 0.2777 0.2615 RANDOM 69.1992
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] -0.38 -0.38 0.76
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.375 r_dihedral_angle_4_deg 15.488 r_dihedral_angle_3_deg 13.103 r_dihedral_angle_1_deg 5.288 r_scangle_it 1.666 r_angle_refined_deg 1.144 r_scbond_it 0.955 r_angle_other_deg 0.851 r_mcangle_it 0.554 r_mcbond_it 0.288
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.375 r_dihedral_angle_4_deg 15.488 r_dihedral_angle_3_deg 13.103 r_dihedral_angle_1_deg 5.288 r_scangle_it 1.666 r_angle_refined_deg 1.144 r_scbond_it 0.955 r_angle_other_deg 0.851 r_mcangle_it 0.554 r_mcbond_it 0.288 r_chiral_restr 0.06 r_mcbond_other 0.06 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 r_gen_planes_other 0.004 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6423 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 184
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction