7POX | pdb_00007pox

TNKS2 in complex with OM-1700, treated with H2O2

X-RAY DIFFRACTION

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Starting Model(s)

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

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		297.15	PEG6000, Bicine, pH = 8.5

Crystal Properties
Matthews coefficient	Solvent content
2.37	48.06

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 41.64	α = 90
b = 76.44	β = 90
c = 147.79	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 EIGER2 XE 16M		2020-07-09	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I03	0.97625	Diamond	I03

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	2.5	50	99.3	0.998	10.64	13.3		16930

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	2.5	2.56			0.899

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	5NOB	2.5	41.443	16930	847	99.331	0.25	0.2479	0.25	0.2802	0.29	55.804

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]
-0.444			7.655		-7.211

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	28.957
r_dihedral_angle_3_deg	12.06
r_dihedral_angle_4_deg	9.4
r_dihedral_angle_1_deg	6.318
r_lrange_it	5.048
r_lrange_other	5.048
r_mcangle_it	3.526
r_mcangle_other	3.525
r_scangle_it	2.578
r_scangle_other	2.577
r_mcbond_it	1.951
r_mcbond_other	1.948
r_scbond_it	1.389
r_scbond_other	1.389
r_angle_refined_deg	1.165
r_angle_other_deg	1.055
r_symmetry_nbd_other	0.175
r_nbd_refined	0.161
r_nbtor_refined	0.16
r_nbd_other	0.152
r_xyhbond_nbd_refined	0.135
r_symmetry_nbd_refined	0.132
r_symmetry_xyhbond_nbd_refined	0.095
r_symmetry_nbtor_other	0.07
r_symmetry_xyhbond_nbd_other	0.049
r_chiral_restr	0.035
r_gen_planes_refined	0.003
r_bond_refined_d	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	3075
Nucleic Acid Atoms
Solvent Atoms	32
Heterogen Atoms	68

Software

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