8HJK

Crystal structure of glycosyltransferase SgUGT94-289-3 in complex with SIA, state 1

• PDB DOI: https://doi.org/10.2210/pdb8HJK/pdb

• Classification: TRANSFERASE
• Organism(s): Siraitia grosvenorii
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2022-11-23 Released: 2024-05-29 
• Deposition Author(s): Li, M., Zhang, S., Cui, S.
• Funding Organization(s): Chinese Academy of Sciences, National Natural Science Foundation of China (NSFC), CAMS Innovation Fund for Medical Sciences (CIFMS)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.83 Å
• R-Value Free: 0.201 
• R-Value Work: 0.184 
• R-Value Observed: 0.185 

Starting Model: other

Literature

Structural insights into the catalytic selectivity of SgUGT94-289-3 towards mogrosides

Cui, S., Zhang, S., Wang, N., Luo, Z., Su, X., Ma, X., Li, M.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 54.22 kDa 
• Atom Count: 3,955 
• Modelled Residue Count: 435 
• Deposited Residue Count: 459 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
glycosyltranseferease	A	459	Siraitia grosvenorii	Mutation(s): 0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
M0O (Subject of Investigation/LOI)	B [auth A], C [auth A]	(2S,3S,4S,5R,6R)-2-(hydroxymethyl)-6-[[(2S,3S,4S,5R,6S)-5-[(2S,3R,4S,5S,6S)-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-6-[(3R,6S)-6-[(3S,8S,9R,10R,11S,13R,14S,17R)-3-[(2S,3R,4S,5S,6S)-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-4,4,9,13,14-pentamethyl-11-oxidanyl-2,3,7,8,10,11,12,15,16,17-decahydro-1H-cyclopenta[a]phenanthren-17-yl]-2-methyl-2-oxidanyl-heptan-3-yl]oxy-3,4-bis(oxidanyl)oxan-2-yl]methoxy]oxane-3,4,5-triol C54 H92 O24 XJIPREFALCDWRQ-QJBLTWLVSA-N
UDP (Subject of Investigation/LOI)	D [auth A]	URIDINE-5'-DIPHOSPHATE C9 H14 N2 O12 P2 XCCTYIAWTASOJW-XVFCMESISA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.83 Å
• R-Value Free: 0.201 
• R-Value Work: 0.184 
• R-Value Observed: 0.185 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 94.285	α = 90
b = 72.527	β = 90
c = 78.409	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
Blu-Ice	data collection
autoPROC	data processing
Aimless	data scaling
PHENIX	phasing
XDS	data reduction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-05-29 
Deposition Author(s): Li, M., Zhang, S., Cui, S.

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Funding Organization	Location	Grant Number
Chinese Academy of Sciences	China	XDB27020106
National Natural Science Foundation of China (NSFC)	China	U20A2004
Chinese Academy of Sciences	China	#YSBR-015
CAMS Innovation Fund for Medical Sciences (CIFMS)	United Kingdom	2021-I2M-1-071

Revision History  

• Version 1.0: 2024-05-29
  Type: Initial release