7PZ1

Structure of the mouse 8-oxoguanine DNA Glycosylase mOGG1 in complex with ligand TH8535

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		294	0.12M Ethylene Glycols, 0.1M Buffer System 2 pH7.5, 30.0%v/v GOL_P4K (Morpheus screen, Molecular Dimensions)

Crystal Properties
Matthews coefficient	Solvent content
2.62	53.07

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 81.191	α = 90
b = 81.827	β = 90
c = 169.555	γ = 90

Symmetry
Space Group	P 21 21 21

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 EIGER X 16M		2021-06-10	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	MAX IV BEAMLINE BioMAX	0.9762	MAX IV	BioMAX

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	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	2.45	84.8	100	0.999	15.5	13.4		42365

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.45	2.54			0.53

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	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	6g40	2.45	84.777	42280	2178	99.915	0.255	0.2528	0.291	83.183

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]
-0.841			3.362		-2.522

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	27.377
r_dihedral_angle_4_deg	15.167
r_dihedral_angle_3_deg	14.327
r_dihedral_angle_1_deg	5.77
r_lrange_it	5.05
r_lrange_other	5.05
r_mcangle_it	3.204
r_mcangle_other	3.204
r_scangle_it	2.511
r_scangle_other	2.511
r_mcbond_it	1.839
r_mcbond_other	1.839
r_scbond_it	1.417
r_scbond_other	1.417
r_angle_refined_deg	1.189
r_angle_other_deg	1.064
r_symmetry_nbd_other	0.158
r_nbd_other	0.158
r_nbd_refined	0.152
r_nbtor_refined	0.149
r_xyhbond_nbd_refined	0.126
r_symmetry_nbd_refined	0.092
r_symmetry_nbtor_other	0.077
r_symmetry_xyhbond_nbd_refined	0.036
r_chiral_restr	0.035
r_symmetry_xyhbond_nbd_other	0.029
r_bond_refined_d	0.002
r_gen_planes_refined	0.002
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	7090
Nucleic Acid Atoms
Solvent Atoms	75
Heterogen Atoms	40

Software

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