5VYB

Structure of the carbohydrate recognition domain of Dectin-2 complexed with a mammalian-type high mannose Man9GlcNAc2 oligosaccharide

Experimental procedure

Experimental method	SINGLE WAVELENGTH
Source type	SYNCHROTRON
Source details	SSRL BEAMLINE BL12-2
Synchrotron site	SSRL
Beamline	BL12-2
Temperature [K]	100
Detector technology	PIXEL
Collection date	2017-03-18
Detector	DECTRIS PILATUS 6M
Wavelength(s)	0.97946
Spacegroup name	C 2 2 21
Unit cell lengths	64.055, 78.834, 76.459
Unit cell angles	90.00, 90.00, 90.00

Refinement procedure

Resolution	38.229 - 2.400
R-factor	0.2069
Rwork	0.205
R-free	0.24040
Structure solution method	MOLECULAR REPLACEMENT
Starting model (for MR)	4zrv
RMSD bond length	0.007
RMSD bond angle	0.528
Data reduction software	XDS
Data scaling software	Aimless (0.5.31)
Phasing software	PHASER
Refinement software	PHENIX

Data quality characteristics

	Overall	Inner shell	Outer shell
Low resolution limit [Å]	38.230	38.230	2.480
High resolution limit [Å]	2.390	8.950	2.390
Rmerge	0.080	0.049	0.432
Rmeas	0.088	0.057	0.482
Rpim	0.038	0.029	0.207
Number of reflections	7880
<I/σ(I)>	12.4
Completeness [%]	99.4	97.3	97.3
Redundancy	5.2	4.3	5.1
CC(1/2)	0.990	0.908	0.931

Crystallization Conditions

crystal ID	method	pH	temperature	details
1	VAPOR DIFFUSION, HANGING DROP	8	295	Drop size: 0.9:0.9 micro-liter of protein:reservoir protein solution: 2 mg/ml CRD, 5 mM CaCl2, 10 mM Tris-Cl, pH 8.0, 25 mM NaCl, and 2 mM Man9GlcNAc2. The reservoir solution: 1.0 M NaCl, 6% polyethylene glycol 400 and 0.1 M Tris-Cl, pH 8.0. freezing solution: 30% polyethylene glycol 400, 1.0 M NaCl, 0.1 M Tris-Cl, pH 8.0, and 2 mM Man9GlcNAc2.