6G3S

Structure of tellurium-centred Anderson-Evans polyoxotungstate (TEW) bound to the nucleotide binding domain of HSP70. Second structure of two TEW-HSP70 structures deposited.


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1HJO 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP2930.1M Bis-Tris pH 6.5, 0.2 M NaCl, 25% PEG 3350
Crystal Properties
Matthews coefficientSolvent content
2.9458.17

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 69.9α = 90
b = 70.967β = 90
c = 99.295γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 2M-F2017-10-01MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X06DA1.00SLSX06DA

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)CC (Half)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
12.344.52970.0740.0880.99810.983.3722131
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.32.4497.80.50.60.851.873.33

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 REPLACEMENTTHROUGHOUT1HJO2.344.5121023110797.970.216570.21480.24974RANDOM43.388
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]
-3.82.711.08
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_bonded64.198
r_dihedral_angle_2_deg36.775
r_dihedral_angle_3_deg16.857
r_dihedral_angle_4_deg16.443
r_long_range_B_other7.447
r_long_range_B_refined7.445
r_dihedral_angle_1_deg6.487
r_rigid_bond_restr5.819
r_scbond_it5.803
r_scangle_other5.621
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_bonded64.198
r_dihedral_angle_2_deg36.775
r_dihedral_angle_3_deg16.857
r_dihedral_angle_4_deg16.443
r_long_range_B_other7.447
r_long_range_B_refined7.445
r_dihedral_angle_1_deg6.487
r_rigid_bond_restr5.819
r_scbond_it5.803
r_scangle_other5.621
r_mcangle_other4.717
r_mcangle_it4.715
r_scbond_other3.676
r_mcbond_it3.151
r_mcbond_other3.145
r_angle_refined_deg1.656
r_angle_other_deg1.007
r_chiral_restr0.092
r_bond_refined_d0.015
r_gen_planes_refined0.007
r_bond_other_d0.002
r_gen_planes_other0.002
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it
r_sphericity_free
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2909
Nucleic Acid Atoms
Solvent Atoms12
Heterogen Atoms98

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing