7B63

Structure of NUDT15 in complex with TH7755

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		294	0.1 M Tris pH 8.0, 0.2 M sodium acetate, 38% PEG 4000

Crystal Properties
Matthews coefficient	Solvent content
2.35	47.57

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 63.602	α = 90
b = 45.641	β = 115.998
c = 67.023	γ = 90

Symmetry
Space Group	P 1 21 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 EIGER X 16M		2019-02-20	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	MAX IV BEAMLINE BioMAX	0.91840	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	1.6	60.24	100	0.999	15.1	6.8		45919

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	1.6	1.63			0.862

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	5LPG	1.6	60.24	45895	2245	99.963	0.168	0.1669	0.1962	24.514

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]
-1.506		-0.266	0.832		0.633

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	32.511
r_dihedral_angle_4_deg	16.833
r_dihedral_angle_3_deg	12.711
r_dihedral_angle_1_deg	7.474
r_lrange_it	6.889
r_lrange_other	6.648
r_scangle_it	5.145
r_scangle_other	5.143
r_scbond_it	3.31
r_scbond_other	3.309
r_mcangle_it	3.22
r_mcangle_other	3.219
r_mcbond_it	2.24
r_mcbond_other	2.239
r_angle_refined_deg	1.827
r_angle_other_deg	1.455
r_symmetry_nbd_refined	0.238
r_nbd_refined	0.211
r_symmetry_xyhbond_nbd_refined	0.191
r_xyhbond_nbd_refined	0.184
r_nbd_other	0.183
r_symmetry_nbd_other	0.177
r_nbtor_refined	0.173
r_chiral_restr	0.091
r_symmetry_nbtor_other	0.083
r_bond_refined_d	0.014
r_gen_planes_refined	0.012
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2512
Nucleic Acid Atoms
Solvent Atoms	348
Heterogen Atoms	65

Software

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