8GXR

crystal structure of UBC domain of UBE2O

• PDB DOI: https://doi.org/10.2210/pdb8GXR/pdb

• Classification: CONTRACTILE PROTEIN
• Organism(s): Trametes pubescens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2022-09-21 Released: 2023-09-27 
• Deposition Author(s): Fu, Z., Zhu, W., Huang, H.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.250 
• R-Value Work: 0.225 
• R-Value Observed: 0.226 

Literature

crystal structure of UBE2O

Fu, Z., Wenning, Z., Huang, 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.

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: 126.51 kDa 
• Atom Count: 8,972 
• Modelled Residue Count: 1,117 
• Deposited Residue Count: 1,124 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
(E3-independent) E2 ubiquitin-conjugating enzyme UBE2O	A, B, C, D	281	Trametes pubescens	Mutation(s): 0  Gene Names: TRAPUB_10883
UniProt
Find proteins for A0A1M2VY70 (Trametes pubescens) Explore A0A1M2VY70  Go to UniProtKB:  A0A1M2VY70

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CIT (Subject of Investigation/LOI)	E [auth A], F [auth B], G [auth C], H [auth D]	CITRIC ACID C6 H8 O7 KRKNYBCHXYNGOX-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.250 
• R-Value Work: 0.225 
• R-Value Observed: 0.226 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.39	α = 90
b = 96.96	β = 90
c = 207.13	γ = 90

Software Package:

Software Name	Purpose
xia2	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
PHENIX	phasing
BUCCANEER	model building

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-09-27 
Deposition Author(s): Fu, Z., Zhu, W., Huang, H.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2023-09-27
  Type: Initial release