8HCY | pdb_00008hcy

Legionella glycosyltransferase

• PDB DOI: https://doi.org/10.2210/pdb8HCY/pdb

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


• Deposited: 2022-11-03 Released: 2023-11-08 
• Deposition Author(s): Chen, T.T., Ouyang, S.Y.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.64 Å
• R-Value Free: 
  0.256 (Depositor), 0.265 (DCC) 
• R-Value Work: 
  0.240 (Depositor) 
• R-Value Observed: 
  0.240 (Depositor) 

Starting Model: experimental

Literature

Structural Basis for the Action Mechanism of Legionella Glycosyltransferase.

Chen, T.T., Zheng, S.R., Tian, L., Lv, S.L., Zhong, W.H., Li, X.L., Zhang, D.D., Zheng, X.X., Ouyang, S.Y.

(2023) Small Struct 

• DOI: https://doi.org/10.1002/sstr.202200336

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Biological Assembly 3  

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

Biological assembly 3 assigned by authors.

Biological Assembly 4  

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

Biological assembly 4 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 394.46 kDa 
• Atom Count: 16,216 
• Modeled Residue Count: 1,996 
• Deposited Residue Count: 3,460 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Dot/Icm secretion system substrate	A [auth C], B [auth A], C [auth B], D	865	Legionella	Mutation(s): 0  Gene Names: C3927_06670
UniProt
Find proteins for Q5ZVF2 (Legionella pneumophila subsp. pneumophila (strain Philadelphia 1 / ATCC 33152 / DSM 7513)) Explore Q5ZVF2  Go to UniProtKB:  Q5ZVF2

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.64 Å
• R-Value Free:  0.256 (Depositor), 0.265 (DCC) 
• R-Value Work:  0.240 (Depositor) 
• R-Value Observed: 0.240 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 92.361	α = 90
b = 112.615	β = 108.143
c = 125.795	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
xia2	data reduction
xia2	data scaling
PHASER	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2023-11-08 
Deposition Author(s): Chen, T.T., Ouyang, S.Y.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	--

Revision History  

• Version 1.0: 2023-11-08
  Type: Initial release
  
• Version 1.1: 2024-05-22
  Changes: Database references
• Version 1.2: 2026-03-04
  Changes: Refinement description, Structure summary