7W0W

The novel membrane-proximal sensing mechanism in a broad-ligand binding chemoreceptor McpA of Bacillus velezensis

X-RAY DIFFRACTION

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Starting Model(s)

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

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		293	0.17 M ammonium acetate, 0.085M sodium acetate pH 4.6, 25.5 % PEG 4000, 15 % glycerol

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 180.161	α = 90
b = 32.855	β = 90
c = 57.903	γ = 90

Symmetry
Space Group	P 21 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 EIGER X 16M		2020-05-31	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SSRF BEAMLINE BL17U1	0.97918	SSRF	BL17U1

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	2.247	50	99.7	0.091	20.4	7.8		17195

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	2.25	2.29			0.477

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	THROUGHOUT	6pxy	2.247	48.756	17150	870	99.547	0.185	0.1825	0.2367	47.448

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]
-0.827			-3.438		4.265

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	32.798
r_dihedral_angle_4_deg	17.591
r_dihedral_angle_3_deg	14.955
r_lrange_other	9.157
r_lrange_it	9.155
r_scangle_it	7.516
r_scangle_other	7.514
r_dihedral_angle_1_deg	6.83
r_mcangle_it	5.134
r_mcangle_other	5.133
r_scbond_it	4.912
r_scbond_other	4.911
r_mcbond_it	3.744
r_mcbond_other	3.73
r_angle_refined_deg	1.47
r_angle_other_deg	1.276
r_nbd_refined	0.195
r_symmetry_xyhbond_nbd_refined	0.185
r_symmetry_nbd_other	0.17
r_nbd_other	0.166
r_nbtor_refined	0.163
r_xyhbond_nbd_refined	0.15
r_ncsr_local_group_1	0.118
r_symmetry_nbd_refined	0.098
r_symmetry_nbtor_other	0.076
r_chiral_restr	0.066
r_bond_refined_d	0.009
r_gen_planes_refined	0.007
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2299
Nucleic Acid Atoms
Solvent Atoms	107
Heterogen Atoms	37

Software

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