8GKN

Crystal structure of TuUGT202A2 (Tetur22g00270) in complex with S-naringenin

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	5.5	293	Protein incubated with 1mM UDP- 5 mM naringenin, 0.2 M Lithium sulfate monohydrate, 0.1 M BIS-TRIS pH 5.5, 25% w/v Polyethylene glycol 3,350

Crystal Properties
Matthews coefficient	Solvent content
2.42	49.24

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 89.728	α = 90
b = 167.566	β = 90
c = 63.108	γ = 90

Symmetry
Space Group	P 21 21 2

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		2022-03-13	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 22-ID	1.0000	APS	22-ID

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	Rrim I (All)	Rpim I (All)	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	2.7	40	99.9	0.149	0.055	0.996	17.2	7.3		26941		-3

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Rrim I (All)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.7	2.75	100		1.133	0.43	0.73	1.9	6.8

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	2.7	35.751	26847	1289	99.699	0.181	0.1781	0.2416	56.351

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]
-1.177			0.041		1.136

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	15.318
r_dihedral_angle_3_deg	14.455
r_dihedral_angle_2_deg	11.956
r_lrange_other	9.21
r_lrange_it	9.208
r_dihedral_angle_1_deg	6.367
r_scangle_it	5.766
r_scangle_other	5.766
r_mcangle_it	4.441
r_mcangle_other	4.441
r_scbond_it	3.516
r_scbond_other	3.515
r_mcbond_it	2.743
r_mcbond_other	2.737
r_angle_refined_deg	1.351
r_angle_other_deg	0.719
r_nbd_other	0.225
r_nbd_refined	0.221
r_symmetry_nbd_other	0.215
r_nbtor_refined	0.182
r_xyhbond_nbd_refined	0.137
r_symmetry_nbd_refined	0.125
r_ncsr_local_group_1	0.094
r_symmetry_nbtor_other	0.079
r_symmetry_xyhbond_nbd_refined	0.067
r_chiral_restr	0.062
r_symmetry_xyhbond_nbd_other	0.014
r_bond_refined_d	0.008
r_gen_planes_other	0.007
r_gen_planes_refined	0.006
r_bond_other_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	6623
Nucleic Acid Atoms
Solvent Atoms	132
Heterogen Atoms	90

Software

Software
Software Name	Purpose
REFMAC	refinement
SERGUI	data collection
HKL-3000	data reduction
MOLREP	phasing
HKL-3000	data scaling