8XAM

Co-crystal structure of compound 7 in complex with MAT2A

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	5UGH

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP		297	0.2 M LiCl, 0.1 M Tris pH 8.0, (18%-20%) PEG6000, 10% Ethylene Glycol

Crystal Properties
Matthews coefficient	Solvent content
2.22	44.68

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 67.968	α = 90
b = 94.043	β = 90
c = 116.892	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		2022-03-11	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 18-ID	1.1807	APS	18-ID

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	1.3	47.02	94.1	1	25.9	6.9		169065

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	1.3	1.32			0.931

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	1.3	40.119	169062	8426	93.948	0.122	0.1213	0.1427	11.625

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]
0.491		0.014	-0.241		-0.25

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	33.957
r_dihedral_angle_4_deg	21.015
r_dihedral_angle_3_deg	11.373
r_dihedral_angle_1_deg	6.882
r_lrange_it	5.304
r_lrange_other	4.834
r_scangle_it	3.184
r_scangle_other	3.183
r_scbond_it	2.157
r_scbond_other	2.157
r_angle_refined_deg	1.999
r_angle_other_deg	1.595
r_mcangle_it	1.462
r_mcangle_other	1.462
r_mcbond_it	1.007
r_mcbond_other	1.007
r_xyhbond_nbd_refined	0.283
r_symmetry_xyhbond_nbd_other	0.236
r_nbd_refined	0.233
r_symmetry_xyhbond_nbd_refined	0.232
r_nbd_other	0.204
r_symmetry_nbd_other	0.19
r_nbtor_refined	0.178
r_symmetry_nbd_refined	0.119
r_chiral_restr	0.118
r_symmetry_nbtor_other	0.088
r_bond_refined_d	0.016
r_gen_planes_refined	0.014
r_gen_planes_other	0.005
r_bond_other_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	5882
Nucleic Acid Atoms
Solvent Atoms	1098
Heterogen Atoms	101

Software

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