9IQZ | pdb_00009iqz

phage HY126 glycosyltransferase

• PDB DOI: https://doi.org/10.2210/pdb9IQZ/pdb

• Classification: TRANSFERASE
• Organism(s): Phage #D
• Expression System: Escherichia
• Mutation(s): No 


• Deposited: 2024-07-13 Released: 2025-07-16 
• Deposition Author(s): Yu, H.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.61 Å
• R-Value Free: 
  0.248 (Depositor), 0.247 (DCC) 
• R-Value Work: 
  0.196 (Depositor), 0.195 (DCC) 
• R-Value Observed: 
  0.198 (Depositor) 

Starting Model: in silico

Literature

structure of protein XAN60436

Yu, H.

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

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 83.5 kDa 
• Atom Count: 6,015 
• Modeled Residue Count: 732 
• Deposited Residue Count: 738 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glycosyltransferase subfamily 4-like N-terminal domain-containing protein	A [auth H], B [auth A]	369	Phage #D	Mutation(s): 0  Gene Names: FFEPELFE_00237
UniProt
Find proteins for Q7Y5D5 (Escherichia phage RB69) Explore Q7Y5D5  Go to UniProtKB:  Q7Y5D5

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.61 Å
• R-Value Free:  0.248 (Depositor), 0.247 (DCC) 
• R-Value Work:  0.196 (Depositor), 0.195 (DCC) 
• R-Value Observed: 0.198 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 70.12	α = 90
b = 82.72	β = 90
c = 139.67	γ = 90

Software Package:

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

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2025-07-16 
Deposition Author(s): Yu, H.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2025-07-16
  Type: Initial release