3NMQ

Hsp90b N-terminal domain in complex with EC44, a pyrrolo-pyrimidine methoxypyridine inhibitor


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1UYMPDB ENTRY 1UYM

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
16.52770.1M Na Cacodylate, 20% PEG 2000 MME, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
2.6753.94

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 66.515α = 90
b = 90.048β = 90
c = 95.182γ = 90
Symmetry
Space GroupI 2 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU RAXIS IV++2007-03-19MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU FR-E DW

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
12.23094.60.0634.2136862
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
2.22.2794.50.3444

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)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 1UYM2.230137411338469794.60.2020.1990.267RANDOM24.785
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]
-0.06-2.032.09
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.438
r_dihedral_angle_4_deg19.789
r_dihedral_angle_3_deg15.233
r_dihedral_angle_1_deg6.516
r_scangle_it4.372
r_scbond_it2.699
r_angle_refined_deg1.827
r_mcangle_it1.74
r_mcbond_it0.994
r_angle_other_deg0.988
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.438
r_dihedral_angle_4_deg19.789
r_dihedral_angle_3_deg15.233
r_dihedral_angle_1_deg6.516
r_scangle_it4.372
r_scbond_it2.699
r_angle_refined_deg1.827
r_mcangle_it1.74
r_mcbond_it0.994
r_angle_other_deg0.988
r_mcbond_other0.265
r_symmetry_hbond_refined0.25
r_symmetry_vdw_other0.231
r_symmetry_vdw_refined0.16
r_xyhbond_nbd_refined0.159
r_chiral_restr0.112
r_bond_refined_d0.023
r_gen_planes_refined0.008
r_bond_other_d0.004
r_gen_planes_other0.001
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
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_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1684
Nucleic Acid Atoms
Solvent Atoms96
Heterogen Atoms29

Software

Software
Software NamePurpose
CrystalCleardata collection
MOLREPphasing
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling