Biological Assembly 1  

 3D View: Structure | 1D-3D View | Validation Report

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 42.86 kDa 
• Atom Count: 3013 
• Modelled Residue Count: 375 
• Deposited Residue Count: 375 
• Unique protein chains: 2

2PX9

The intrinsic affinity between E2 and the Cys domain of E1 in Ubiquitin-like modifications

• PDB DOI: 10.2210/pdb2PX9/pdb

• Classification: PROTEIN BINDING
• Organism(s): Homo sapiens
• Mutation(s): No 


• Deposited: 2007-05-14 Released: 2007-07-24 
• Deposition Author(s): Wang, J.H., Hu, W.D., Cai, S., Lee, B., Song, J., Chen, Y.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 1000 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Literature

The intrinsic affinity between E2 and the Cys domain of E1 in ubiquitin-like modifications.

Wang, J., Hu, W., Cai, S., Lee, B., Song, J., Chen, Y.

(2007) Mol Cell 27: 228-237

• PubMed: 17643372 
• DOI: 10.1016/j.molcel.2007.05.023
• Primary Citation of Related Structures:  
  2PX9


• PubMed Abstract: 
  

Ubiquitin-like modifications, which are carried out by similar biochemical mechanisms, regulate nearly every aspect of cellular function. Despite the recent advancements in characterizing their enzymology, our knowledge about the dynamic processes of these modifications is still fragmentary. In this study, we have uncovered an intrinsic affinity between the SUMO E2 and the Cys domain of SUMO E1. NMR studies in combination with paramagnetic spin labeling demonstrate that this interaction is mediated by previously unknown interfaces on both E1 and E2 and places the two catalytic Cys residues of the two enzymes in close proximity. Site-directed mutagenesis and enzymatic assays indicate that the interaction is fundamentally important for the transfer of SUMO from E1 to E2. Results from this study suggest that the interaction between E2 and the Cys domain of E1 participates in guiding the E2's translocation to E1's enzymatic active site in ubiquitin-like modifications.

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Organizational Affiliation: 

Division of Immunology, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
SUMO-activating enzyme subunit 2	A	217	Homo sapiens	Mutation(s): 0  Gene Names: UBA2, SAE2, UBLE1B, HRIHFB2115 EC: 6.3.2 (PDB Primary Data), 2.3.2 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UBT2 (Homo sapiens) Explore Q9UBT2  Go to UniProtKB:  Q9UBT2
PHAROS:  Q9UBT2

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
SUMO-conjugating enzyme UBC9	B	158	Homo sapiens	Mutation(s): 0  Gene Names: UBE2I, UBC9, UBCE9 EC: 6.3.2 (PDB Primary Data), 2.3.2 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for P63279 (Homo sapiens) Explore P63279  Go to UniProtKB:  P63279
PHAROS:  P63279

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 1000 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 
• OLDERADO: 2PX9 Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2007-05-14 
• Released Date: 2007-07-24 
Deposition Author(s): Wang, J.H., Hu, W.D., Cai, S., Lee, B., Song, J., Chen, Y.

Revision History  

• Version 1.0: 2007-07-24
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2022-03-16
  Changes: Data collection, Database references, Derived calculations