6DMF

Bacteroides ovatus mixed-linkage glucan utilization locus (MLGUL) SGBP-A with cellohexaose

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	6DK2	PDB entry 6DK2

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	8.5	293	Molecular Dimensions Crystal Strategy Screen I, well G3 (0.2 M magnesium chloride, 0.1 M Tris acetate, pH 8.5, 25% PEG2000 MME).

Crystal Properties
Matthews coefficient	Solvent content
3.19	61.4

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 228.845	α = 90
b = 228.845	β = 90
c = 246.517	γ = 120

Symmetry
Space Group	P 61

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	CCD	MARMOSAIC 300 mm CCD		2016-06-10	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 21-ID-G	0.979	APS	21-ID-G

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim 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	2.4	49.6	99.93	0.2249	0.2396	0.996	8.4	8.5		283596

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.4	2.487	99.52		1.755	0.58	1.11	7.3

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 (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	PDB entry 6DK2	2.4	49.6	269456	14140	99.87	0.1922	0.1896	0.2423	RANDOM	34.414

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]
-1.49	-0.74		-1.49		4.83

RMS Deviations
Key	Refinement Restraint Deviation
r_sphericity_free	70.055
r_dihedral_angle_2_deg	35.698
r_sphericity_bonded	31.192
r_dihedral_angle_4_deg	17.646
r_dihedral_angle_3_deg	15.77
r_dihedral_angle_1_deg	6.323
r_rigid_bond_restr	3.612
r_angle_refined_deg	0.996
r_angle_other_deg	0.812
r_chiral_restr	0.047

RMS Deviations
Key	Refinement Restraint Deviation
r_sphericity_free	70.055
r_dihedral_angle_2_deg	35.698
r_sphericity_bonded	31.192
r_dihedral_angle_4_deg	17.646
r_dihedral_angle_3_deg	15.77
r_dihedral_angle_1_deg	6.323
r_rigid_bond_restr	3.612
r_angle_refined_deg	0.996
r_angle_other_deg	0.812
r_chiral_restr	0.047
r_bond_refined_d	0.005
r_gen_planes_refined	0.003
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	40685
Nucleic Acid Atoms
Solvent Atoms	944
Heterogen Atoms	812

Software

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

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.