7R1Q

X-ray structure of the adduct formed upon reaction of the gold(I) N-heterocyclic carbene complex Au2 with lysozyme


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 193L 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.52932.0 M sodium formate 0.1 M hepes buffer pH 7.5
Crystal Properties
Matthews coefficientSolvent content
1.9336.18

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 77α = 90
b = 77β = 90
c = 37.27γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M2021-07-27MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONELETTRA BEAMLINE 11.2C0.96ELETTRA11.2C

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim 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
11.134.4395.60.0590.0620.0130.99928.417.944982
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.11.1158.80.5510.6370.3180.6352.43.7

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTFREE R-VALUE193L1.134.4344409223896.5410.1340.13220.1716.618
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]
0.5790.579-1.159
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.254
r_dihedral_angle_other_3_deg28.186
r_dihedral_angle_4_deg21.801
r_rigid_bond_restr17.524
r_dihedral_angle_1_deg14.328
r_dihedral_angle_3_deg13.987
r_mcbond_it8.002
r_mcbond_other7.953
r_scbond_it7.591
r_scbond_other7.585
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.254
r_dihedral_angle_other_3_deg28.186
r_dihedral_angle_4_deg21.801
r_rigid_bond_restr17.524
r_dihedral_angle_1_deg14.328
r_dihedral_angle_3_deg13.987
r_mcbond_it8.002
r_mcbond_other7.953
r_scbond_it7.591
r_scbond_other7.585
r_lrange_it7.478
r_lrange_other7.467
r_scangle_it6.983
r_scangle_other6.979
r_mcangle_other6.965
r_mcangle_it6.938
r_angle_refined_deg2.708
r_angle_other_deg1.876
r_symmetry_xyhbond_nbd_refined0.259
r_nbd_other0.258
r_nbd_refined0.245
r_symmetry_nbd_refined0.243
r_xyhbond_nbd_refined0.232
r_symmetry_nbd_other0.217
r_nbtor_refined0.188
r_chiral_restr0.158
r_symmetry_xyhbond_nbd_other0.111
r_symmetry_nbtor_other0.105
r_bond_refined_d0.037
r_gen_planes_refined0.017
r_bond_other_d0.009
r_metal_ion_refined0.009
r_gen_planes_other0.003
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1001
Nucleic Acid Atoms
Solvent Atoms213
Heterogen Atoms7

Software

Software
Software NamePurpose
REFMACrefinement
autoPROCdata reduction
autoPROCdata scaling
PHASERphasing