7R1Q | pdb_00007r1q

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

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	193L

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	7.5	293	2.0 M sodium formate 0.1 M hepes buffer pH 7.5

Crystal Properties
Matthews coefficient	Solvent content
1.93	36.18

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 77	α = 90
b = 77	β = 90
c = 37.27	γ = 90

Symmetry
Space Group	P 43 21 2

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	PIXEL	DECTRIS PILATUS 6M		2021-07-27	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ELETTRA BEAMLINE 11.2C	0.96	ELETTRA	11.2C

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)	Redundancy	Number Reflections (All)	Number Reflections (Observed)	Observed Criterion Sigma (F)	Observed Criterion Sigma (I)	B (Isotropic) From Wilson Plot
1	1.1	34.43	95.6	0.059	0.062	0.013	0.999	28.4	17.9		44982

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)	Redundancy	Number Unique Reflections (All)
1	1.1	1.11	58.8		0.551	0.637	0.318	0.635	2.4	3.7

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	193L	1.1	34.43	44409	2238	96.541	0.134	0.1322	0.13	0.17	0.17	16.618

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]
0.579			0.579		-1.159

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	32.254
r_dihedral_angle_other_3_deg	28.186
r_dihedral_angle_4_deg	21.801
r_rigid_bond_restr	17.524
r_dihedral_angle_1_deg	14.328
r_dihedral_angle_3_deg	13.987
r_mcbond_it	8.002
r_mcbond_other	7.953
r_scbond_it	7.591
r_scbond_other	7.585
r_lrange_it	7.478
r_lrange_other	7.467
r_scangle_it	6.983
r_scangle_other	6.979
r_mcangle_other	6.965
r_mcangle_it	6.938
r_angle_refined_deg	2.708
r_angle_other_deg	1.876
r_symmetry_xyhbond_nbd_refined	0.259
r_nbd_other	0.258
r_nbd_refined	0.245
r_symmetry_nbd_refined	0.243
r_xyhbond_nbd_refined	0.232
r_symmetry_nbd_other	0.217
r_nbtor_refined	0.188
r_chiral_restr	0.158
r_symmetry_xyhbond_nbd_other	0.111
r_symmetry_nbtor_other	0.105
r_bond_refined_d	0.037
r_gen_planes_refined	0.017
r_bond_other_d	0.009
r_metal_ion_refined	0.009
r_gen_planes_other	0.003

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1001
Nucleic Acid Atoms
Solvent Atoms	213
Heterogen Atoms	7

Software

Software
Software Name	Purpose
REFMAC	refinement
autoPROC	data reduction
autoPROC	data scaling
PHASER	phasing