7KV7

Surface glycan-binding protein B from Bacteroides fluxus in complex with laminaritriose

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION		295	0.1 M MES pH6.6, 0.2 M ammonium sulfate, 20% (w/v) PEG5000MME, 0.1 M guanidine hydrochloride

Crystal Properties
Matthews coefficient	Solvent content
2.55	51.76

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 74.268	α = 90
b = 59.249	β = 102.611
c = 148.137	γ = 90

Symmetry
Space Group	I 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	100	PIXEL	DECTRIS PILATUS3 6M		2020-11-18	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SSRL BEAMLINE BL12-2	0.9795	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	1.76	37.38	93.5	0.999	21.6	6.8		57885

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	1.76	1.79			0.972

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	1.76	35.664	57885	2864	92.663	0.161	0.1591	0.2018	24.287

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]
2.047		1.322	-1.262		-1.251

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	32.853
r_dihedral_angle_4_deg	16.691
r_dihedral_angle_3_deg	11.518
r_lrange_it	7.956
r_dihedral_angle_1_deg	7.36
r_lrange_other	6.757
r_scangle_it	4.298
r_scangle_other	4.27
r_scbond_it	2.943
r_scbond_other	2.9
r_mcangle_other	2.63
r_mcangle_it	2.629
r_angle_other_deg	2.518
r_mcbond_it	2.016
r_mcbond_other	2.013
r_angle_refined_deg	1.642
r_symmetry_xyhbond_nbd_refined	0.305
r_symmetry_nbd_refined	0.248
r_nbd_refined	0.237
r_symmetry_nbd_other	0.223
r_xyhbond_nbd_refined	0.196
r_nbd_other	0.185
r_nbtor_refined	0.172
r_symmetry_nbtor_other	0.083
r_chiral_restr	0.075
r_bond_other_d	0.037
r_gen_planes_other	0.019
r_bond_refined_d	0.012
r_gen_planes_refined	0.011

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3824
Nucleic Acid Atoms
Solvent Atoms	645
Heterogen Atoms	83

Software

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