8AHI

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
2.52	50.72

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 61.913	α = 90
b = 61.913	β = 90
c = 181.903	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	Bruker PHOTON III		2022-06-24	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	BRUKER X8 PROTEUM	1.54184

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	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	2.69	25.603	99.2	0.2074	10.07	14.25		18685

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.69	2.73	100		0.5548	3.45	14.25

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	2.69	25.603	10410	515	99.237	0.16	0.1552	0.2489	29.915

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]
-1.154			-1.154		2.308

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	18.498
r_dihedral_angle_2_deg	18.48
r_dihedral_angle_6_deg	15.519
r_lrange_it	9.027
r_lrange_other	9.023
r_dihedral_angle_1_deg	8.041
r_scangle_it	5.994
r_scangle_other	5.992
r_mcangle_it	4.881
r_mcangle_other	4.88
r_scbond_it	4.044
r_scbond_other	4.043
r_mcbond_it	3.2
r_mcbond_other	3.191
r_angle_refined_deg	2.027
r_angle_other_deg	0.628
r_symmetry_xyhbond_nbd_refined	0.399
r_nbd_refined	0.226
r_xyhbond_nbd_refined	0.21
r_symmetry_nbd_refined	0.207
r_symmetry_nbd_other	0.204
r_nbtor_refined	0.184
r_nbd_other	0.171
r_symmetry_nbtor_other	0.092
r_chiral_restr	0.085
r_bond_refined_d	0.011
r_gen_planes_refined	0.009
r_bond_other_d	0.002
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2310
Nucleic Acid Atoms
Solvent Atoms	152
Heterogen Atoms	13

Software

Software
Software Name	Purpose
REFMAC	refinement
SAINT	data reduction
SADABS	data scaling
Coot	model building