8HYN

Bacterial STING from Riemerella anatipestifer

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
in silico model	AlphaFold

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		277	0.1 M Imidazole/MES pH 6.5, 0.1 M carboxylic acids, 20% v/v Ethylene glycol, 10 % w/v PEG 8000

Crystal Properties
Matthews coefficient	Solvent content
2.56	51.99

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 53.265	α = 90
b = 60.121	β = 90
c = 118.823	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	CCD	ADSC QUANTUM 210		2021-04-28	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	NSRRC BEAMLINE BL13B1	1.00000	NSRRC	BL13B1

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	2.089	30	98.3	0.042	43.126	7.1		22890

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	2.089	2.18			0.301

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	THROUGHOUT	2.089	25.957	22788	1140	97.643	0.192	0.1893	0.2387	33.11

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]
-0.135			0.533		-0.398

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	38.362
r_dihedral_angle_3_deg	13.729
r_dihedral_angle_4_deg	13.275
r_lrange_it	8.2
r_lrange_other	8.063
r_dihedral_angle_1_deg	6.043
r_scangle_it	5.644
r_scangle_other	5.642
r_mcangle_it	4.29
r_mcangle_other	4.289
r_scbond_it	3.573
r_scbond_other	3.572
r_mcbond_it	2.928
r_mcbond_other	2.919
r_angle_other_deg	1.438
r_angle_refined_deg	1.395
r_nbd_other	0.257
r_xyhbond_nbd_refined	0.222
r_symmetry_nbd_refined	0.218
r_nbd_refined	0.209
r_symmetry_xyhbond_nbd_refined	0.204
r_symmetry_nbd_other	0.196
r_nbtor_refined	0.17
r_symmetry_nbtor_other	0.079
r_chiral_restr	0.071
r_symmetry_xyhbond_nbd_other	0.056
r_bond_refined_d	0.01
r_gen_planes_refined	0.007
r_bond_other_d	0.004
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2553
Nucleic Acid Atoms
Solvent Atoms	360
Heterogen Atoms	26

Software

Software
Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHENIX	phasing