7C31

Crystal structure of the grapevine defensin VvK1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.30 Å
  • R-Value Free: 0.190 
  • R-Value Work: 0.169 
  • R-Value Observed: 0.170 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Modulation of Lymphocyte Potassium Channel KV1.3 by Membrane-Penetrating, Joint-Targeting Immunomodulatory Plant Defensin.

Ong, S.T.Bajaj, S.Tanner, M.R.Chang, S.C.Krishnarjuna, B.Ng, X.R.Morales, R.A.V.Chen, M.W.Luo, D.Patel, D.Yasmin, S.Ng, J.J.H.Zhuang, Z.Nguyen, H.M.El Sahili, A.Lescar, J.Patil, R.Charman, S.A.Robins, E.G.Goggi, J.L.Tan, P.W.Sadasivam, P.Ramasamy, B.Hartimath, S.V.Dhawan, V.Bednenko, J.Colussi, P.Wulff, H.Pennington, M.W.Kuyucak, S.Norton, R.S.Beeton, C.Chandy, K.G.

(2020) Acs Pharmacol Transl Sci 3: 720-736

  • DOI: https://doi.org/10.1021/acsptsci.0c00035
  • Primary Citation of Related Structures:  
    7C2P, 7C31

  • PubMed Abstract: 

    We describe a cysteine-rich, membrane-penetrating, joint-targeting, and remarkably stable peptide, EgK5, that modulates voltage-gated K V 1.3 potassium channels in T lymphocytes by a distinctive mechanism. EgK5 enters plasma membranes and binds to K V 1.3, causing current run-down by a phosphatidylinositol 4,5-bisphosphate-dependent mechanism. EgK5 exhibits selectivity for K V 1.3 over other channels, receptors, transporters, and enzymes. EgK5 suppresses antigen-triggered proliferation of effector memory T cells, a subset enriched among pathogenic autoreactive T cells in autoimmune disease. PET-CT imaging with 18 F-labeled EgK5 shows accumulation of the peptide in large and small joints of rodents. In keeping with its arthrotropism, EgK5 treats disease in a rat model of rheumatoid arthritis. It was also effective in treating disease in a rat model of atopic dermatitis. No signs of toxicity are observed at 10-100 times the in vivo dose. EgK5 shows promise for clinical development as a therapeutic for autoimmune diseases.


  • Organizational Affiliation

    Lee Kong Chian School of Medicine, Nanyang Technological University Singapore, Experimental Medicine Building, 59 Nanyang Drive, Singapore 636921.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Knot1 domain-containing protein
A, B
47Vitis viniferaMutation(s): 0 
UniProt
Find proteins for F6HGI0 (Vitis vinifera)
Explore F6HGI0 
Go to UniProtKB:  F6HGI0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupF6HGI0
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.30 Å
  • R-Value Free: 0.190 
  • R-Value Work: 0.169 
  • R-Value Observed: 0.170 
  • Space Group: P 43
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 27.854α = 90
b = 27.854β = 90
c = 99.605γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
iMOSFLMdata reduction
Aimlessdata scaling
MOLREPphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2020-09-16
    Type: Initial release
  • Version 1.1: 2023-11-29
    Changes: Data collection, Database references, Refinement description