2KY6 | pdb_00002ky6

Structure of ARC92VBD/MED25ACID


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 50 
  • Conformers Submitted: 25 
  • Selection Criteria: structures with the lowest energy 

wwPDB Validation 3D Report Full Report

Validation slider image for 2KY6

This is version 1.2 of the entry. See complete history

Literature

Structure of the VP16 transactivator target in the Mediator.

Milbradt, A.G.Kulkarni, M.Yi, T.Takeuchi, K.Sun, Z.Y.Luna, R.E.Selenko, P.Naar, A.M.Wagner, G.

(2011) Nat Struct Mol Biol 18: 410-415

  • DOI: https://doi.org/10.1038/nsmb.1999
  • Primary Citation Related Structures: 
    2KY6

  • PubMed Abstract: 

    The human Mediator coactivator complex interacts with many transcriptional activators and facilitates recruitment of RNA polymerase II to promote target gene transcription. The MED25 subunit is a critical target of the potent herpes simplex 1 viral transcriptional activator VP16. Here we determine the solution structure of the MED25 VP16-binding domain (VBD) and define its binding site for the N-terminal portion of the VP16 transactivation domain (TADn). A hydrophobic furrow, formed by a β-barrel and two α-helices in MED25 VBD, interacts tightly with VP16 TADn. Mutations in this furrow prevent binding of VP16 TAD to MED25 VBD and interfere with the ability of overexpressed MED25 VBD to inhibit VP16-dependent transcriptional activation in vivo. This detailed molecular understanding of transactivation by the benchmark activator VP16 could provide important insights into viral and cellular gene activation mechanisms.


  • Organizational Affiliation
    • Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, Massachusetts, USA.

Macromolecule Content 

  • Total Structure Weight: 18.98 kDa 
  • Atom Count: 1,334 
  • Modeled Residue Count: 166 
  • Deposited Residue Count: 166 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Mediator of RNA polymerase II transcription subunit 25166Homo sapiensMutation(s): 0 
Gene Names: MED25ACID1ARC92PTOV2TCBAP0758
UniProt & NIH Common Fund Data Resources
Find proteins for Q71SY5 (Homo sapiens)
Explore Q71SY5 
Go to UniProtKB:  Q71SY5
PHAROS:  Q71SY5
GTEx:  ENSG00000104973 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ71SY5
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 50 
  • Conformers Submitted: 25 
  • Selection Criteria: structures with the lowest energy 

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2011-03-09
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2024-05-01
    Changes: Data collection, Database references