2BYH

3-(5-chloro-2,4-dihydroxyphenyl)-pyrazole-4-carboxamides as Inhibitors of the Hsp90 Molecular Chaperone


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1UY1PDB ENTRY 1UY1

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
16.525% PEG MME 2000, 0.1M NA CACODYLATE, PH6.5, 0.2M MGCL2., pH 6.50
Crystal Properties
Matthews coefficientSolvent content
2.856

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 53.585α = 90
b = 44.26β = 115.61
c = 54.4γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU IMAGE PLATEOSMIC BLUE MIRRORS2002-11-12MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.93099.40.0314.72.6222532
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.92.0297.50.116.12.3

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 1UY11.948.816348185499.30.1690.1640.211RANDOM15.65
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]
0.340.12-0.2-0.03
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg6.218
r_scangle_it3.866
r_scbond_it2.313
r_angle_other_deg1.814
r_angle_refined_deg1.555
r_mcangle_it1.496
r_mcbond_it0.822
r_symmetry_vdw_other0.303
r_symmetry_vdw_refined0.252
r_nbd_other0.247
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg6.218
r_scangle_it3.866
r_scbond_it2.313
r_angle_other_deg1.814
r_angle_refined_deg1.555
r_mcangle_it1.496
r_mcbond_it0.822
r_symmetry_vdw_other0.303
r_symmetry_vdw_refined0.252
r_nbd_other0.247
r_nbd_refined0.218
r_symmetry_hbond_refined0.174
r_xyhbond_nbd_refined0.154
r_chiral_restr0.098
r_nbtor_other0.084
r_bond_refined_d0.015
r_gen_planes_refined0.008
r_gen_planes_other0.008
r_bond_other_d0.002
r_dihedral_angle_2_deg
r_dihedral_angle_3_deg
r_dihedral_angle_4_deg
r_nbtor_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1689
Nucleic Acid Atoms
Solvent Atoms246
Heterogen Atoms26

Software

Software
Software NamePurpose
REFMACrefinement
d*TREKdata reduction
d*TREKdata scaling
AMoREphasing