Experiment: 8S6J

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	6SX5

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7.5	277	35%vPEG 300 100mM HEPES 100mM NaCl

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 109.17	α = 90
b = 109.17	β = 90
c = 208.925	γ = 90

Symmetry
Space Group	I 4 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	80	PIXEL	DECTRIS PILATUS 12M		2020-12-02	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I23	2.755	Diamond	I23

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	2.15	96.944	100	0.979	2.63	16		34745			43.8

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	2.15	2.21	100		0.972		7.7

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	2.15	96.757	34736	1749	99.997	0.23	0.229	0.2447	67.979

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]
0.061			0.061		-0.122

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	15.39
r_lrange_it	14.682
r_dihedral_angle_6_deg	13.046
r_scangle_it	12.593
r_mcangle_it	11.066
r_dihedral_angle_2_deg	9.272
r_scbond_it	9.22
r_mcbond_it	8.096
r_dihedral_angle_1_deg	5.888
r_angle_refined_deg	2.178

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	15.39
r_lrange_it	14.682
r_dihedral_angle_6_deg	13.046
r_scangle_it	12.593
r_mcangle_it	11.066
r_dihedral_angle_2_deg	9.272
r_scbond_it	9.22
r_mcbond_it	8.096
r_dihedral_angle_1_deg	5.888
r_angle_refined_deg	2.178
r_nbtor_refined	0.314
r_nbd_refined	0.244
r_symmetry_xyhbond_nbd_refined	0.237
r_symmetry_nbd_refined	0.189
r_xyhbond_nbd_refined	0.161
r_chiral_restr	0.146
r_bond_refined_d	0.011
r_gen_planes_refined	0.011

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2022
Nucleic Acid Atoms
Solvent Atoms	28
Heterogen Atoms	64

Software

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

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.