Crystal Structure of N-terminal Fragments of E1

  • Classification: LIGASE
  • Organism(s): Homo sapiens
  • Expression System: Escherichia coli BL21(DE3)
  • Mutation(s): Yes 

  • Deposited: 2014-02-28 Released: 2015-02-25 
  • Deposition Author(s): Xie, S.-T.
  • Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

  • Resolution: 2.75 Å
  • R-Value Free: 0.264 
  • R-Value Work: 0.205 
  • R-Value Observed: 0.208 

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This is version 1.3 of the entry. See complete history


Expression, purification, and crystal structure of N-terminal domains of human ubiquitin-activating enzyme (E1).

Xie, S.T.

(2014) Biosci Biotechnol Biochem 78: 1542-1549

  • DOI: https://doi.org/10.1080/09168451.2014.923301
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    Ubiquitin-activating enzyme (E1) is a key regulator in protein ubiquitination, which lies on the upstream of the ubiquitin-related pathways and determines the activation of the downstream enzyme cascade. Thus far, no structural information about the human ubiquitin-activating enzyme has been reported. We expressed and purified the N-terminal domains of human E1 and determined their crystal structures, which contain inactive adenylation domain (IAD) and the first catalytic cysteine half-domain (FCCH). This study presents the crystal structure of human E1 fragment for the first time. The main structure of both IAD and FCCH superimposed well with their corresponding domains in yeast Uba1, but their relative positions vary significantly. This work provides new structural insights in understanding the mechanisms of ubiquitin activation in humans.

  • Organizational Affiliation

    a MOE Key Laboratory of Protein Sciences and Tsinghua-Peking Center for Life Sciences , School of Life Sciences, Tsinghua University , Beijing , China.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Ubiquitin-like modifier-activating enzyme 1
A, B
446Homo sapiensMutation(s): 1 
Gene Names: UBA1A1S9TUBE1
UniProt & NIH Common Fund Data Resources
Find proteins for P22314 (Homo sapiens)
Explore P22314 
Go to UniProtKB:  P22314
PHAROS:  P22314
GTEx:  ENSG00000130985 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP22314
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.75 Å
  • R-Value Free: 0.264 
  • R-Value Work: 0.205 
  • R-Value Observed: 0.208 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 94.126α = 90
b = 186.812β = 90
c = 135.222γ = 90
Software Package:
Software NamePurpose
HKL-2000data collection
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

  • Released Date: 2015-02-25 
  • Deposition Author(s): Xie, S.-T.

Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China31070643
National Natural Science Foundation of China (NSFC)China31130062

Revision History  (Full details and data files)

  • Version 1.0: 2015-02-25
    Type: Initial release
  • Version 1.1: 2017-09-13
    Changes: Author supporting evidence, Database references, Derived calculations, Other, Source and taxonomy
  • Version 1.2: 2020-01-08
    Changes: Author supporting evidence
  • Version 1.3: 2023-12-27
    Changes: Data collection, Database references, Refinement description