7ZQX

Human galectin-3c in complex with a galactose derivative

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	LIQUID DIFFUSION	7.5	289	The compound was dissolved in 100% DMSO to 50 mM concentration (2.30 mg + 86.2 uL DMSO). 15 uL galectin-3C (20 mg/ml in 10 mM Na phosphate buffer pH 7.4, 100 mM NaCl, 10 mM b-mercaptoethanol) were mixed with 0.5 uL compound solution. The sample was then centrifuged at 13 500 rpm for 5 min. A seed bead solution (Hampton Research) was used made from crushed apo galectin-3C crystals. The 40-fold diluted seed solution (diluted with reservoir solution similar to described below) was used to seed the crystallisation drops. The drops were set up in MRC 3-well plates and stored at 16C as follows: 200 nL galectin-3C complex + 30 nL app galectin-3C seed stock + 200 nL reservoir solution and equilibrated against 40 uL of reservoir containing 30% PEG 4000, 0.1 M Tris/HCl pH 7.5, 0.1 M MgCl2, 7.9 mM b- mercaptoethanol. Large crystals (0.1 - 0.2 mm) were briefly soaked in a cryoprotectant solution with the following composition: 25.5 % PEG 4000 15 % glycerol 85 mM Tris/HCl pH 7.5 85 mM MgCl2 250 mM NaSCN 8 mM b-mercaptoethanol 1 mM compound After soaking the crystals were flash-cooled in liquid N2.

Crystal Properties
Matthews coefficient	Solvent content
2.11	41.72

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 36.404	α = 90
b = 58.088	β = 90
c = 62.575	γ = 90

Symmetry
Space Group	P 21 21 21

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 2M-F		2019-04-26	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SLS BEAMLINE X06DA	1	SLS	X06DA

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (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	1.05	29.06	100	0.037	1	21.1	6.1		383590

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	1.05	1.07			0.545	0.874	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	5OAX	1.05	29.06	59384	3239	99.91	0.1097	0.1087	0.1291	RANDOM	11.745

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]
0.3			-0.33		0.03

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	31.393
r_dihedral_angle_4_deg	12.373
r_dihedral_angle_3_deg	11.14
r_dihedral_angle_1_deg	8.204
r_rigid_bond_restr	4.631
r_angle_refined_deg	2.449
r_angle_other_deg	1.512
r_chiral_restr	0.133
r_bond_refined_d	0.02
r_gen_planes_refined	0.015
r_gen_planes_other	0.006
r_bond_other_d	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1106
Nucleic Acid Atoms
Solvent Atoms	263
Heterogen Atoms	46

Software

Software
Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
XDS	data scaling
PHASER	phasing