Biological Assembly 1  

 3D View: Structure

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 19.69 kDa 
• Atom Count: 1053 
• Modelled Residue Count: 130 
• Deposited Residue Count: 176 
• Unique protein chains: 2

2LY4

HMGB1-facilitated p53 DNA binding occurs via HMG-box/p53 transactivation domain interaction and is regulated by the acidic tail

• DOI: 10.2210/pdb2LY4/pdb
• BMRB: 18709

• Classification: NUCLEAR PROTEIN/ANTITUMOUR PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2012-09-12 Released: 2012-10-31 
• Deposition Author(s): Rowell, J.P., Simpson, K.L., Stott, K., Watson, M., Thomas, J.O.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 10 
• Selection Criteria: structures with the lowest energy 

Literature

HMGB1-Facilitated p53 DNA Binding Occurs via HMG-Box/p53 Transactivation Domain Interaction, Regulated by the Acidic Tail.

Rowell, J.P., Simpson, K.L., Stott, K., Watson, M., Thomas, J.O.

(2012) Structure 20: 2014-2024

• PubMed: 23063560 
• DOI: 10.1016/j.str.2012.09.004
• Primary Citation of Related Structures:  
  2LY4


• PubMed Abstract: 
  

Facilitated binding of p53 to DNA by high mobility group B1 (HMGB1) may involve interaction between the N-terminal region of p53 and the high mobility group (HMG) boxes, as well as HMG-induced bending of the DNA. Intramolecular shielding of the boxes by the HMGB1 acidic tail results in an unstable complex with p53 until the tail is truncated to half its length, at which point the A box, proposed to be the preferred binding site for p53(1-93), is exposed, leaving the B box to bind and bend DNA. The A box interacts with residues 38-61 (TAD2) of the p53 transactivation domain. Residues 19-26 (TAD1) bind weakly, but only in the context of p53(1-93) and not as a free TAD1 peptide. We have solved the structure of the A-box/p53(1-93) complex by nuclear magnetic resonance spectroscopy. The incipient amphipathic helix in TAD2 recognizes the concave DNA-binding face of the A box and may be acting as a single-stranded DNA mimic.

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Organizational Affiliation: 

Department of Biochemistry, University of Cambridge, 80 Tennis Court Road, Cambridge CB2 1GA, UK.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
High mobility group protein B1	A	83	Homo sapiens	Mutation(s): 0  Gene Names: HMG1, HMGB1
UniProt & NIH Common Fund Data Resources
Find proteins for P09429 (Homo sapiens) Explore P09429  Go to UniProtKB:  P09429
PHAROS:  P09429 GTEx:  ENSG00000189403

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Cellular tumor antigen p53	B	93	Homo sapiens	Mutation(s): 0  Gene Names: P53, TP53
UniProt & NIH Common Fund Data Resources
Find proteins for P04637 (Homo sapiens) Explore P04637  Go to UniProtKB:  P04637
PHAROS:  P04637 GTEx:  ENSG00000141510

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 10 
• Selection Criteria: structures with the lowest energy 
• OLDERADO: 2LY4 Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2012-09-12 
• Released Date: 2012-10-31 
Deposition Author(s): Rowell, J.P., Simpson, K.L., Stott, K., Watson, M., Thomas, J.O.

Revision History  

• Version 1.0: 2012-10-31
  Type: Initial release
  
• Version 1.1: 2012-12-26
  Changes: Database references