7CYW

Crystal structure of a flavonoid C-glucosyltrasferase from Fagopyrum esculentum (FeCGTa) complexed with BrUTP

• PDB DOI: https://doi.org/10.2210/pdb7CYW/pdb

• Classification: TRANSFERASE
• Organism(s): Fagopyrum esculentum
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2020-09-04 Released: 2020-09-23 
• Deposition Author(s): Koyanagi, Y., Taguchi, G., Arai, R.
• Funding Organization(s): Japan Society for the Promotion of Science (JSPS)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.237 
• R-Value Work: 0.201 
• R-Value Observed: 0.203 

Starting Model: experimental

Literature

Crystal structure of a flavonoid C-glucosyltrasferase from Fagopyrum esculentum

Koyanagi, Y., Arai, R., Taguchi, G.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 49.57 kDa 
• Atom Count: 3,654 
• Modelled Residue Count: 428 
• Deposited Residue Count: 443 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
UDP-glycosyltransferase 708C1	A	443	Fagopyrum esculentum	Mutation(s): 0  Gene Names: UGT708C1, CGTa EC: 2.4.1 (PDB Primary Data), 2.4.1.360 (UniProt)
UniProt
Find proteins for A0A0A1HA03 (Fagopyrum esculentum) Explore A0A0A1HA03  Go to UniProtKB:  A0A0A1HA03

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BUP (Subject of Investigation/LOI)	C [auth A]	5-bromouridine 5'-(tetrahydrogen triphosphate) C9 H14 Br N2 O15 P3 IWFHOSULCAJGRM-UAKXSSHOSA-N
ACT	B [auth A]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.237 
• R-Value Work: 0.201 
• R-Value Observed: 0.203 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 53.565	α = 90
b = 76.01	β = 90
c = 93.194	γ = 90

Software Package:

Software Name	Purpose
DENZO	data collection
HKL-2000	data reduction
SCALEPACK	data scaling
MR-Rosetta	phasing
Coot	model building
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2020-09-23 
Deposition Author(s): Koyanagi, Y., Taguchi, G., Arai, R.

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Funding Organization	Location	Grant Number
Japan Society for the Promotion of Science (JSPS)	Japan	JP26450120
Japan Society for the Promotion of Science (JSPS)	Japan	JP20K05825
Japan Society for the Promotion of Science (JSPS)	Japan	JP24780097
Japan Society for the Promotion of Science (JSPS)	Japan	JP16K05841

Revision History  

• Version 1.0: 2020-09-23
  Type: Initial release
  
• Version 1.1: 2023-11-29
  Changes: Data collection, Database references, Refinement description