8R74

Galectin-1 in complex with thiogalactoside derivative

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	4Q27

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		288	0.1 M sodium acetate pH 6.2, 29 % PEG 4000, 0.2 M ammonium sulphate, seeded

Crystal Properties
Matthews coefficient	Solvent content
2.79	55.98

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 53.139	α = 90
b = 62.352	β = 90
c = 98.016	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 6M		2018-04-19	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I04	0.9795	Diamond	I04

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	1.54	46.72	99.9	0.054	0.999	10	4.24		48869

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	1.54	1.57			0.76	0.51

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	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	1.54	46.715	48869	2453	99.814	0.177	0.1752	0.2189	31.666

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]
2.112			0.725		-2.836

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	15.638
r_dihedral_angle_3_deg	14.19
r_lrange_it	11.438
r_lrange_other	10.887
r_dihedral_angle_2_deg	7.932
r_dihedral_angle_1_deg	7.554
r_scangle_it	7.112
r_scangle_other	7.096
r_rigid_bond_restr	6.189
r_mcangle_it	5.687
r_mcangle_other	5.686
r_scbond_it	5.175
r_scbond_other	5.102
r_mcbond_it	3.993
r_mcbond_other	3.991
r_angle_refined_deg	2.093
r_angle_other_deg	0.655
r_symmetry_nbd_refined	0.296
r_nbd_other	0.248
r_symmetry_xyhbond_nbd_refined	0.235
r_nbd_refined	0.216
r_symmetry_nbd_other	0.208
r_xyhbond_nbd_refined	0.189
r_nbtor_refined	0.18
r_ncsr_local_group_1	0.117
r_symmetry_nbtor_other	0.092
r_chiral_restr	0.087
r_bond_refined_d	0.011
r_gen_planes_refined	0.01
r_gen_planes_other	0.002
r_bond_other_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2040
Nucleic Acid Atoms
Solvent Atoms	221
Heterogen Atoms	60

Software

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