7OZ9

Sulfated host glycan recognition by carbohydrate sulfatases of the human gut microbiota (BT3057-S1_16)

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	7AN1

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		295	35 mg/ml BT3057S1_16 with 10 mM 4S-GalNAc was crystallised in 20 % PEG 3350 and 0.2 M sodium nitrate

Crystal Properties
Matthews coefficient	Solvent content
2.45	49.83

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 66.17	α = 90
b = 90.755	β = 98.55
c = 94.169	γ = 90

Symmetry
Space Group	P 1 21 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 PILATUS 6M-F		2018-07-18	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I04-1	0.9159	Diamond	I04-1

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	1.907	65.52	99.6	0.992	8.8	1.9		85409

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	1.91	1.94			0.39	2.2

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	7AN1	1.907	65.52	85408	4097	99.594	0.187	0.1849	0.2233	23.895

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]
0.256		-0.004	0.587		-0.805

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	31.528
r_dihedral_angle_4_deg	14.651
r_dihedral_angle_3_deg	14.12
r_dihedral_angle_1_deg	7.14
r_lrange_it	4.169
r_lrange_other	4.13
r_scangle_it	2.996
r_scangle_other	2.996
r_mcangle_it	2.35
r_mcangle_other	2.35
r_scbond_it	1.938
r_scbond_other	1.938
r_mcbond_it	1.622
r_mcbond_other	1.621
r_angle_refined_deg	1.478
r_angle_other_deg	1.281
r_nbd_refined	0.195
r_symmetry_nbd_other	0.178
r_nbtor_refined	0.163
r_xyhbond_nbd_refined	0.157
r_metal_ion_refined	0.145
r_nbd_other	0.142
r_symmetry_nbd_refined	0.114
r_symmetry_xyhbond_nbd_other	0.093
r_symmetry_xyhbond_nbd_refined	0.087
r_symmetry_nbtor_other	0.075
r_chiral_restr	0.069
r_bond_refined_d	0.008
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	7540
Nucleic Acid Atoms
Solvent Atoms	405
Heterogen Atoms	78

Software

Software
Software Name	Purpose
REFMAC	refinement
xia2	data reduction
xia2	data scaling
PHASER	phasing