2MYQ | pdb_00002myq

NMR structure of an Odin-Sam1 fragment


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 20 
  • Selection Criteria: target function 

wwPDB Validation 3D Report Full Report

Validation slider image for 2MYQ

This is version 1.4 of the entry. See complete history

Literature

Peptide Fragments of Odin-Sam1: Conformational Analysis and Interaction Studies with EphA2-Sam.

Mercurio, F.A.Di Natale, C.Pirone, L.Scognamiglio, P.L.Marasco, D.Pedone, E.M.Saviano, M.Leone, M.

(2015) Chembiochem 16: 1629-1636

  • DOI: https://doi.org/10.1002/cbic.201500197
  • Primary Citation Related Structures: 
    2MYQ

  • PubMed Abstract: 

    Odin is a protein belonging to the ANKS family, and has two tandem Sam domains. The first, Odin-Sam1, binds to the Sam domain of the EphA2 receptor (EphA2-Sam); this interaction could be crucial for the regulation of receptor endocytosis and might have an impact on cancer. Odin-Sam1 associates with EphA2-Sam by adopting a "mid-loop/end-helix" model. In this study three peptide sequences, encompassing the mid-loop interacting portion of Odin-Sam1 and its C-terminal α5 helix, were designed. Their conformational properties were analyzed by CD and NMR. In addition, their abilities to interact with EphA2-Sam were investigated by SPR studies. The peptides adopt a predominantly disordered state in aqueous buffer, but a higher helical content is evident in the presence of the cosolvent trifluoroethanol. Dissociation constants towards EphA2-Sam were in the high micromolar range. The structural findings suggest further routes for the design of potential anti-cancer therapeutics as inhibitors of EphA2-Sam heterotypic interactions.


  • Organizational Affiliation
    • Institute of Biostructures and Bioimaging, National Research Council, Via Mezzocannone 16, 80134, Naples (Italy).

Macromolecule Content 

  • Total Structure Weight: 4.97 kDa 
  • Atom Count: 350 
  • Modeled Residue Count: 45 
  • Deposited Residue Count: 45 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Ankyrin repeat and SAM domain-containing protein 1A45Homo sapiensMutation(s): 2 
UniProt & NIH Common Fund Data Resources
Find proteins for Q92625 (Homo sapiens)
Explore Q92625 
Go to UniProtKB:  Q92625
PHAROS:  Q92625
GTEx:  ENSG00000064999 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ92625
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 20 
  • Selection Criteria: target function 

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2015-07-08
    Type: Initial release
  • Version 1.1: 2015-07-15
    Changes: Database references
  • Version 1.2: 2015-08-05
    Changes: Database references
  • Version 1.3: 2023-06-14
    Changes: Data collection, Database references, Derived calculations, Other
  • Version 1.4: 2024-11-20
    Changes: Data collection, Database references, Structure summary