8AHH

PAC FragmentDEL: Photoactivated covalent capture of DNA encoded fragments for hit discovery

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	8.5	277	0.8M Na/K tartrate 0.1M Tris pH 8.5

Crystal Properties
Matthews coefficient	Solvent content
2.49	50.18

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 61.897	α = 90
b = 61.897	β = 90
c = 180.162	γ = 90

Symmetry
Space Group	P 41 21 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 EIGER2 XE 16M		2021-09-19	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I03	0.9763	Diamond	I03

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	2.037	58.589	94.6	0.097	0.099	0.019	1	21.4	26		20091

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	2.037	2.173	52.6		2.747	2.801	0.542	0.699	1.4	26.3

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	2BVA	2.037	58.539	20091	1017	86.065	0.188	0.1842	0.2501	48.888

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]
-0.102			-0.102		0.204

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	18.338
r_dihedral_angle_6_deg	16.447
r_dihedral_angle_2_deg	15.368
r_lrange_other	9.549
r_lrange_it	9.542
r_scangle_it	7.544
r_scangle_other	7.542
r_dihedral_angle_1_deg	6.923
r_mcangle_it	5.7
r_mcangle_other	5.699
r_scbond_it	5.674
r_scbond_other	5.672
r_mcbond_it	4.553
r_mcbond_other	4.55
r_angle_refined_deg	1.531
r_angle_other_deg	0.507
r_symmetry_xyhbond_nbd_refined	0.354
r_nbd_refined	0.208
r_symmetry_nbd_refined	0.206
r_symmetry_nbd_other	0.193
r_nbd_other	0.185
r_xyhbond_nbd_refined	0.184
r_nbtor_refined	0.167
r_symmetry_nbtor_other	0.08
r_chiral_restr	0.07
r_bond_refined_d	0.009
r_gen_planes_refined	0.007
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2312
Nucleic Acid Atoms
Solvent Atoms	147
Heterogen Atoms	15

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
Coot	model building