8UV0

Discovery of (4-Pyrazolyl)-2-Aminopyrimidines as Potent and Selective Inhibitors of Cyclin-Dependent Kinase 2

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	8.5	293	0.1 M Tris pH 8.5, 16% PEG 2000 MME, 0.2 M trimethylamine N-oxide

Crystal Properties
Matthews coefficient	Solvent content
2.04	39.84

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 53.663	α = 90
b = 72.009	β = 90
c = 71.913	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		2021-07-08	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	MAX IV BEAMLINE BioMAX	0.9763	MAX IV	BioMAX

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	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	1.4	43.01	99.8	0.07	0.02	0.997	16.2	13.4		55105			21.52

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.4	1.43	99.5		1.54	0.43	0.892	2.2	13.5

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	1.55	43.004	41140	2096	99.917	0.158	0.155	0.2034	27.907

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]
-0.608			-0.603		1.211

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	17.043
r_dihedral_angle_3_deg	13.402
r_dihedral_angle_2_deg	13.296
r_rigid_bond_restr	6.804
r_dihedral_angle_1_deg	6.237
r_scangle_it	5.21
r_scangle_other	5.208
r_lrange_other	5.081
r_lrange_it	5.08
r_mcangle_it	4.586
r_mcangle_other	4.585
r_scbond_it	4.574
r_scbond_other	4.572
r_mcbond_it	3.974
r_mcbond_other	3.974
r_angle_refined_deg	1.863
r_angle_other_deg	0.739
r_nbd_refined	0.224
r_nbtor_refined	0.175
r_symmetry_nbd_other	0.163
r_symmetry_nbd_refined	0.163
r_symmetry_xyhbond_nbd_refined	0.161
r_nbd_other	0.139
r_xyhbond_nbd_refined	0.119
r_chiral_restr	0.099
r_symmetry_nbtor_other	0.073
r_bond_refined_d	0.012
r_gen_planes_refined	0.011
r_bond_other_d	0.003
r_gen_planes_other	0.003

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2132
Nucleic Acid Atoms
Solvent Atoms	122
Heterogen Atoms	33

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
STARANISO	data scaling
DIMPLE	phasing