7W1B

Glycosyltransferase

• PDB DOI: https://doi.org/10.2210/pdb7W1B/pdb

• Classification: TRANSFERASE
• Organism(s): Calotropis gigantea
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2021-11-19 Released: 2022-03-02 
• Deposition Author(s): Wei, H., Feng, L.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free: 0.221 
• R-Value Work: 0.179 
• R-Value Observed: 0.181 

Starting Model: experimental

Literature

Functional and Structural Dissection of a Plant Steroid 3-O-Glycosyltransferase Facilitated the Engineering Enhancement of Sugar Donor Promiscuity

Huang, W., He, Y., Jiang, R., Deng, Z., Long, F.

(2022) ACS Catal : 2927-2937

• DOI: https://doi.org/10.1021/acscatal.1c05729

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 54.85 kDa 
• Atom Count: 3,692 
• Modelled Residue Count: 457 
• Deposited Residue Count: 480 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glycosyltransferase	A	480	Calotropis gigantea	Mutation(s): 0  EC: 2.4.1
UniProt
Find proteins for A0A385Z7H9 (Calotropis gigantea) Explore A0A385Z7H9  Go to UniProtKB:  A0A385Z7H9

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
UDP	B [auth A]	URIDINE-5'-DIPHOSPHATE C9 H14 N2 O12 P2 XCCTYIAWTASOJW-XVFCMESISA-N
DTX (Subject of Investigation/LOI)	D [auth A]	DIGITOXIGENIN C23 H34 O4 XZTUSOXSLKTKJQ-CESUGQOBSA-N
TRS	C [auth A]	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C4 H12 N O3 LENZDBCJOHFCAS-UHFFFAOYSA-O

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free: 0.221 
• R-Value Work: 0.179 
• R-Value Observed: 0.181 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 53.351	α = 90
b = 74.141	β = 95.76
c = 63.588	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
Aimless	data scaling
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2022-03-02 
Deposition Author(s): Wei, H., Feng, L.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2022-03-02
  Type: Initial release
  
• Version 1.1: 2023-11-29
  Changes: Data collection, Refinement description