7BSO

Crystal structure of the human NLRP9 pyrin domain

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP		295	20%(w/v) PEG MME 2,000 0.1M Tris pH 8.5 0.2M Trimethylamine n-oxide

Crystal Properties
Matthews coefficient	Solvent content
1.66	25.95

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 51.97	α = 90
b = 33.685	β = 102.397
c = 49.667	γ = 90

Symmetry
Space Group	C 1 2 1

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	125	PIXEL	DECTRIS EIGER2 X 9M		2019-12-08	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	PAL/PLS BEAMLINE 5C (4A)	1.000	PAL/PLS	5C (4A)

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Sym 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	2.08	28.08	98.9	0.073	22.28	6.2		5035

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.1	2.15			0.533

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	4EWI	2.08	28.08	5035	272	97.748	0.217	0.2133	0.2825	39.069

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]
-1.624		2.149	-0.397		0.982

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	44.122
r_dihedral_angle_3_deg	18.71
r_dihedral_angle_4_deg	7.648
r_lrange_other	7.029
r_lrange_it	7.009
r_scangle_it	6.485
r_scangle_other	6.48
r_dihedral_angle_1_deg	5.555
r_scbond_it	5.159
r_scbond_other	5.153
r_mcangle_other	4.956
r_mcangle_it	4.923
r_mcbond_it	4.098
r_mcbond_other	4.038
r_angle_other_deg	2.104
r_angle_refined_deg	1.754
r_nbd_other	0.314
r_symmetry_nbd_other	0.243
r_nbd_refined	0.231
r_xyhbond_nbd_refined	0.227
r_nbtor_refined	0.199
r_symmetry_nbd_refined	0.164
r_chiral_restr	0.114
r_symmetry_nbtor_other	0.077
r_symmetry_xyhbond_nbd_refined	0.035
r_bond_other_d	0.032
r_bond_refined_d	0.015
r_gen_planes_other	0.006
r_gen_planes_refined	0.005
r_symmetry_xyhbond_nbd_other	0.003

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	786
Nucleic Acid Atoms
Solvent Atoms	14
Heterogen Atoms

Software

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