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9uce

Crystal structure of glycosyltransferase UGT73K1 in complex with UDP

Method: X-RAY DIFFRACTION D_max: 78.5 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9uce
deposition_date	2025-04-04
last_revision	2025-04-23
title	Crystal structure of glycosyltransferase UGT73K1 in complex with UDP
keywords	Glycosyltransferase, UDP, TRANSFERASE; TRANSFERASE
method	X-RAY DIFFRACTION

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Download Data

SAXS curve (.dat) P(r) distribution (.pr.out) Structure (CIF)

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2. SAXS Parameters (CRYSOL)

rg_guinier	23.71 Å
rg_electron	22.46 Å
i0	44299200.00
molecular_weight	51223.0 kDa
excluded_volume	63948 Å³
envelope_volume	75434 Å³
shell_volume	27439 Å³
envelope_diameter	79.9 Å
shell_rg	30.00 Å
envelope_rg	22.59 Å
shape_rg	22.47 Å
total_rg	23.33 Å
total_atoms	3595
n_residues	453
n_harmonics	20
q_range	— – 0.5000 Å⁻¹
n_points	101
shell_type	directional
solvent_density	0.3340 e/Å³
contrast_shell	0.0300 e/Å³
crysol_version	4.1.3

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3. P(r) Analysis (GNOM)

dmax	78.5 Å
rg_real	23.60 Å
rg_real_error	0.41 Å
i0_real	4.4300e+07
i0_real_error	5.4480e+05
rg_reciprocal	23.63 Å
i0_reciprocal	44300000.0000
total_estimate	0.8854
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	29.4 Å
skewness	0.226
kurtosis	-0.404
angular_range	— – 0.3350 Å⁻¹
current_alpha	0.0001
highest_alpha	11090000.0000
n_real_points	65
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.835; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.999

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4. Crystallography & Experiment

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5. Entities & Polymer Info (5)

Entity 1 polymer

description	Glycosyltransferase
formula_weight	57548.6 kDa
ec_number	2.4.1.-
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	3745

MGSSHHHHHHSSGLVPRGSHMASMTGGQQMGRGSMGTESKPLKIYMLPFFAQGHLIPLVNLARLVASKNQHVTIITTPSNAQLFDKTIEEEKAAGHHIRVHIIKFPSAQLGLPTGVENLFAASDNQTAGKIHMAAHFVKADIEEFMKENPPDVFISDIIFTWSESTAKNLQIPRLVFNPISIFDVCMIQAIQSHPESFVSDSGPYQIHGLPHPLTLPIKPSPGFARLTESLIEAENDSHGVIVNSFAELDEGYTEYYENLTGRKVWHVGPTSLMVEIPKKKKVVSTENDSSITKHQSLTWLDTKEPSSVLYISFGSLCRLSNEQLKEMANGIEASKHQFLWVVHGKEGEDEDNWLPKGFVERMKEEKKGMLIKGWVPQALILDHPSIGGFLTHCGWNATVEAISSGVPMVTMPGFGDQYYNEKLVTEVHRIGVEVGAAEWSMSPYDAKKTVVRAERIEKAVKKLMDSNGEGGEIRKRAKEMKEKAWKAVQEGGSSQNCLTKLVDYLHSVVVTKSVELN

Source

organism	Medicago truncatula
common_name	barrel medic
ncbi_taxonomy_id	3880
host_organism	Escherichia coli BL21(DE3)

Entity 2 non-polymer

description	CHLORIDE ION
formula_weight	35.5 kDa
src_method	syn
entity_count	3

Entity 3 non-polymer

description	SULFATE ION
formula_weight	96.1 kDa
src_method	syn
entity_count	4

Entity 4 non-polymer

description	URIDINE-5'-DIPHOSPHATE
formula_weight	404.2 kDa
src_method	syn
entity_count	1

Entity 5 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	150

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6. Citations (1)

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length_a	91.500 Å
length_b	91.500 Å
length_c	167.000 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	8

space_group	P 43 21 2
int_tables_number	96
crystal_system	—

resolution	2.200 Å
resolution_low	44.120 Å
r_factor	0.1846
r_work	0.1834
r_free	0.2077

fit	/app/data/saxs_computation/uc/9uce/9uce.fit
pddf	/app/data/pr_computation/uc/9uce/9uce.pr.out
profile	/app/data/saxs_computation/uc/9uce/9uce.dat