7KWC

Surface glycan-binding protein B (truncated) from Bacteroides thetaiotaomicron

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION		295	0.1M magnesium chloride, 0.1M sodium citrate, 15% (w/v) PEG4000

Crystal Properties
Matthews coefficient	Solvent content
2.21	44.37

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 80.689	α = 90
b = 80.689	β = 90
c = 86.027	γ = 90

Symmetry
Space Group	P 43 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 PILATUS3 6M		2020-11-30	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SSRL BEAMLINE BL12-2	0.97946	SSRL	BL12-2

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	2.61	19.64	94.5	1	42.5	25.4		8556

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	2.61	2.66			0.951

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	SAD	FREE R-VALUE	2.611	19.64	8556	414	94.084	0.252	0.2501	0.2922	53.316

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]
1.844			1.844		-3.688

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	30.05
r_dihedral_angle_3_deg	11.941
r_dihedral_angle_4_deg	7.705
r_dihedral_angle_1_deg	6.331
r_angle_other_deg	2.433
r_lrange_it	2.195
r_lrange_other	2.194
r_mcangle_it	1.491
r_mcangle_other	1.491
r_angle_refined_deg	1.181
r_scangle_it	0.908
r_scangle_other	0.907
r_mcbond_it	0.807
r_mcbond_other	0.806
r_scbond_it	0.478
r_scbond_other	0.477
r_symmetry_nbd_other	0.184
r_nbtor_refined	0.154
r_nbd_refined	0.145
r_nbd_other	0.141
r_xyhbond_nbd_refined	0.128
r_symmetry_xyhbond_nbd_other	0.122
r_symmetry_nbd_refined	0.12
r_symmetry_nbtor_other	0.064
r_symmetry_xyhbond_nbd_refined	0.038
r_bond_other_d	0.037
r_chiral_restr	0.025
r_gen_planes_refined	0.002
r_gen_planes_other	0.002
r_bond_refined_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1861
Nucleic Acid Atoms
Solvent Atoms	12
Heterogen Atoms

Software

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