6WAB

Crystal structure of human galectin-4 C-terminal carbohydrate recognition domain in complex with galactose derivative

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	7	293	1.6 M ammonium sulfate, 4% (v/v) polyethylene glycol (PEG) 400, 0.1 M HEPES pH 7.0

Crystal Properties
Matthews coefficient	Solvent content
2.15	42.71

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 45.698	α = 90
b = 128.558	β = 101.219
c = 45.891	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 EIGER X 16M		2019-10-22	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	AUSTRALIAN SYNCHROTRON BEAMLINE MX2	0.9537	Australian Synchrotron	MX2

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	2.28	45.01	98.6	0.992	6.8	3.4		23306

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	2.28	2.36			0.766

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	4YM2	2.28	36.795	23261	1214	98.343	0.2	0.1967	0.2662	36.074

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]
0.023		-0.003	-0.025		0.003

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	25.328
r_dihedral_angle_3_deg	16.936
r_dihedral_angle_4_deg	13.85
r_dihedral_angle_1_deg	8.466
r_lrange_other	6.979
r_lrange_it	6.977
r_scangle_it	4.903
r_scangle_other	4.902
r_mcangle_it	4.445
r_mcangle_other	4.445
r_scbond_it	3.345
r_scbond_other	3.345
r_mcbond_it	3.097
r_mcbond_other	3.097
r_angle_refined_deg	1.692
r_chiral_restr_other	1.527
r_angle_other_deg	1.208
r_symmetry_nbd_refined	0.218
r_nbd_other	0.205
r_nbd_refined	0.198
r_symmetry_nbd_other	0.179
r_xyhbond_nbd_refined	0.172
r_nbtor_refined	0.169
r_symmetry_xyhbond_nbd_refined	0.139
r_symmetry_nbtor_other	0.093
r_chiral_restr	0.065
r_bond_refined_d	0.01
r_gen_planes_refined	0.008
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4325
Nucleic Acid Atoms
Solvent Atoms	93
Heterogen Atoms	80

Software

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