8OW8

Crystal Structure of the Catalytic Domain of a Botulinum Neurotoxin Homologue from Enterococcus faecium

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7	289.15	0.1 M SPG (succinic acid, sodium phosphate monobasic monohydrate, and glycine) buffer pH 7.0, 25% w/v PEG 1500

Crystal Properties
Matthews coefficient	Solvent content
2.64	53.35

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 143.894	α = 90
b = 143.894	β = 90
c = 51.695	γ = 90

Symmetry
Space Group	P 42 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		2022-09-24	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I04	0.9537	Diamond	I04

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	143.89	100	0.129	0.134	0.036	1	13.2	26.3		37319

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	2.05			3.807	3.952	1.06	0.626		26.6

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	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	2	64.434	37257	1882	99.944	0.19	0.1883	0.2237	RANDOM	55.903

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]
1.266			1.266		-2.532

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	17.226
r_dihedral_angle_6_deg	16.232
r_dihedral_angle_2_deg	15.224
r_lrange_it	8.207
r_lrange_other	8.207
r_dihedral_angle_1_deg	7.449
r_scangle_it	6.671
r_scangle_other	6.67
r_mcangle_it	5.27
r_mcangle_other	5.269
r_scbond_it	4.904
r_scbond_other	4.903
r_mcbond_it	3.912
r_mcbond_other	3.912
r_angle_refined_deg	1.91
r_angle_other_deg	0.606
r_nbd_refined	0.226
r_metal_ion_refined	0.208
r_symmetry_nbd_other	0.197
r_nbd_other	0.197
r_symmetry_xyhbond_nbd_refined	0.19
r_nbtor_refined	0.187
r_xyhbond_nbd_refined	0.163
r_symmetry_nbd_refined	0.093
r_symmetry_nbtor_other	0.086
r_chiral_restr	0.085
r_bond_refined_d	0.011
r_gen_planes_refined	0.01
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3218
Nucleic Acid Atoms
Solvent Atoms	156
Heterogen Atoms	25

Software

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