2C6B | pdb_00002c6b

Solution structure of the C4 zinc-finger domain of HDM2

• PDB DOI: https://doi.org/10.2210/pdb2C6B/pdb

• Classification: LIGASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2005-11-08 Released: 2006-01-04 
• Deposition Author(s): Yu, G.W., Allen, M.D., Andreeva, A., Fersht, A.R., Bycroft, M.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 20 
• Conformers Submitted: 20 
• Selection Criteria: NO VIOLATIONS > 0.25A 

Literature

Solution Structure of the C4 Zinc Finger Domain of Hdm2.

Yu, G.W., Allen, M.D., Andreeva, A., Fersht, A.R., Bycroft, M.

(2006) Protein Sci 15: 384

• PubMed: 16385008 
• DOI: https://doi.org/10.1110/ps.051927306
• Primary Citation Related Structures: 
  2C6A, 2C6B


• PubMed Abstract: 
  

  HDM2 is a ubiquitin E3 ligase that is a key negative regulator of the tumor suppressor p53. Here, we report the determination of the solution structure of the C4 zinc finger domain of HDM2 using multidimensional NMR. The HDM2 C4 zinc finger domain has a fold consisting of a 3(10) helix followed by four beta-strands, which shares significant structural similarity to the zinc ribbon protein family. Family based sequence analysis identified two putative binding sites, one of which resembles an RNA binding motif.

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Organizational Affiliation: 
• Centre for Protein Engineering, Medical Research Council, Hills Road, CB2 2QH, Cambridge, United Kingdom.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 5.48 kDa 
• Atom Count: 379 
• Modeled Residue Count: 46 
• Deposited Residue Count: 46 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
UBIQUITIN-PROTEIN LIGASE E3 MDM2	A	46	Homo sapiens	Mutation(s): 0  EC: 6.3.2 (PDB Primary Data), 2.3.2.27 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for Q00987 (Homo sapiens) Explore Q00987  Go to UniProtKB:  Q00987
PHAROS:  Q00987 GTEx:  ENSG00000135679

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	B [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 20 
• Conformers Submitted: 20 
• Selection Criteria: NO VIOLATIONS > 0.25A 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-01-04 
Deposition Author(s): Yu, G.W., Allen, M.D., Andreeva, A., Fersht, A.R., Bycroft, M.

Revision History  

• Version 1.0: 2006-01-04
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2018-01-24
  Changes: Source and taxonomy
• Version 1.4: 2024-05-15
  Changes: Data collection, Database references, Derived calculations, Other