7R00

ATAD2 in complex with FragLite33

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	3DAI

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	6.5	293	0.1M BisTris pH 6-7, 1.7-2.1M Ammonium sulphate

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 79.331	α = 90
b = 79.331	β = 90
c = 137.081	γ = 120

Symmetry
Space Group	P 65 2 2

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 PILATUS 6M		2019-06-22	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I04-1	0.915	Diamond	I04-1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	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	1.48	137.08	100	0.072	0.076	0.023	0.999	16	15.9		43256

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.48	1.51			1.824	2.21	1.225	0.437		5.6

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	3DAI	1.48	61.496	43179	2131	99.921	0.208	0.2067	0.2367	32.147

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]
-0.787	-0.393		-0.787		2.552

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	32.555
r_dihedral_angle_4_deg	17.006
r_dihedral_angle_3_deg	14.272
r_lrange_it	9.94
r_lrange_other	9.937
r_scangle_other	7.374
r_scangle_it	7.356
r_scbond_it	4.879
r_scbond_other	4.86
r_dihedral_angle_1_deg	4.712
r_mcangle_it	3.737
r_mcangle_other	3.735
r_mcbond_other	2.745
r_mcbond_it	2.744
r_angle_refined_deg	1.821
r_angle_other_deg	1.505
r_symmetry_xyhbond_nbd_refined	0.27
r_xyhbond_nbd_refined	0.252
r_nbd_refined	0.23
r_nbd_other	0.212
r_symmetry_nbd_other	0.19
r_symmetry_nbd_refined	0.18
r_nbtor_refined	0.177
r_symmetry_xyhbond_nbd_other	0.097
r_chiral_restr	0.091
r_symmetry_nbtor_other	0.083
r_xyhbond_nbd_other	0.039
r_bond_refined_d	0.013
r_gen_planes_refined	0.01
r_bond_other_d	0.002
r_gen_planes_other	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1084
Nucleic Acid Atoms
Solvent Atoms	177
Heterogen Atoms	45

Software

Software
Software Name	Purpose
REFMAC	refinement
REFMAC	refinement
Aimless	data scaling
xia2	data reduction
PHASER	phasing