8UAB

SARS-CoV-2 main protease (Mpro) complex with AC1115

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	7BRO

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	8	295	0.1 M imidazole pH 8, 0.1 M LiSO4, 1 mM DTT, 12% PEG 3000

Crystal Properties
Matthews coefficient	Solvent content
2.01	38.92

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 45.867	α = 90
b = 53.4	β = 101.111
c = 113.373	γ = 90

Symmetry
Space Group	I 1 2 1

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 PILATUS3 6M		2022-09-15	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ALS BEAMLINE 5.0.2	1.0	ALS	5.0.2

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	1.78	48.19	97.6	0.088	0.096	0.036	0.999	10.9	6.8		25214

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	1.78	1.82	97.2		2.259	2.44	0.912	0.429	0.8	6.9

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Work	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	1.781	48.187	25178	1996	97.186	0.196	0.1926	0.2284	40.617

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]
-0.94		0.662	0.037		0.598

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_other_3_deg	16.675
r_dihedral_angle_3_deg	15.915
r_dihedral_angle_6_deg	13.673
r_dihedral_angle_2_deg	10.467
r_dihedral_angle_1_deg	7.257
r_dihedral_angle_other_2_deg	7.07
r_lrange_it	6.454
r_lrange_other	6.384
r_scangle_it	3.904
r_scangle_other	3.903
r_mcangle_it	2.812
r_mcangle_other	2.811
r_scbond_it	2.454
r_scbond_other	2.454
r_mcbond_it	1.83
r_mcbond_other	1.83
r_angle_other_deg	1.599
r_angle_refined_deg	1.422
r_symmetry_xyhbond_nbd_other	0.421
r_nbd_refined	0.247
r_nbd_other	0.232
r_symmetry_nbd_other	0.223
r_symmetry_nbd_refined	0.19
r_xyhbond_nbd_refined	0.184
r_nbtor_refined	0.183
r_symmetry_xyhbond_nbd_refined	0.161
r_symmetry_nbtor_other	0.087
r_chiral_restr	0.068
r_gen_planes_other	0.007
r_bond_refined_d	0.006
r_gen_planes_refined	0.006
r_bond_other_d	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2361
Nucleic Acid Atoms
Solvent Atoms	133
Heterogen Atoms	30

Software

Software
Software Name	Purpose
REFMAC	refinement
DIALS	data reduction
Aimless	data scaling
PHASER	phasing