7ES0

a rice glycosyltransferase in complex with UDP and REX

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		293	20% PEG 4000 0.1 M HEPES buffer pH 6.5

Crystal Properties
Matthews coefficient	Solvent content
2.1	41.54

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 57.561	α = 90
b = 83.082	β = 90
c = 87.946	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		2019-12-16	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SSRF BEAMLINE BL18U1	0.978	SSRF	BL18U1

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	1.39	57.56	69.4	0.04	0.998	22.5	5.8		58677

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	1.39	1.42	4.4		0.303	0.82		1.3

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	THROUGHOUT	1.395	48.209	58628	3065	69.333	0.16	0.1586	0.1745	17.086

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]
1.03			-0.777		-0.253

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	30.436
r_dihedral_angle_4_deg	15.364
r_dihedral_angle_3_deg	11.825
r_dihedral_angle_1_deg	6.545
r_lrange_it	4.604
r_lrange_other	4.336
r_scangle_it	2.563
r_scangle_other	2.562
r_mcangle_it	1.81
r_mcangle_other	1.81
r_scbond_it	1.631
r_scbond_other	1.631
r_angle_refined_deg	1.358
r_angle_other_deg	1.346
r_dihedral_angle_other_2_deg	1.136
r_mcbond_it	1.113
r_mcbond_other	1.099
r_nbd_refined	0.202
r_nbd_other	0.183
r_symmetry_nbd_other	0.17
r_nbtor_refined	0.159
r_symmetry_nbd_refined	0.125
r_symmetry_xyhbond_nbd_refined	0.11
r_xyhbond_nbd_refined	0.101
r_symmetry_nbtor_other	0.076
r_chiral_restr	0.069
r_gen_planes_refined	0.006
r_bond_refined_d	0.005
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3115
Nucleic Acid Atoms
Solvent Atoms	482
Heterogen Atoms	119

Software

Software
Software Name	Purpose
REFMAC	refinement
DIALS	data reduction
PHASER	phasing
DIALS	data scaling