6F55 | pdb_00006f55

Complex structure of PACSIN SH3 domain and TRPV4 proline rich region


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 10 
  • Selection Criteria: structures with the least restraint violations 

wwPDB Validation 3D Report Full Report

Validation slider image for 6F55

This is version 1.3 of the entry. See complete history

Literature

Structural Basis of TRPV4 N Terminus Interaction with Syndapin/PACSIN1-3 and PIP2.

Goretzki, B.Glogowski, N.A.Diehl, E.Duchardt-Ferner, E.Hacker, C.Gaudet, R.Hellmich, U.A.

(2018) Structure 26: 1583-1593.e5

  • DOI: https://doi.org/10.1016/j.str.2018.08.002
  • Primary Citation Related Structures: 
    6F55

  • PubMed Abstract: 

    Transient receptor potential (TRP) channels are polymodally regulated ion channels. TRPV4 (vanilloid 4) is sensitized by PIP 2 and desensitized by Syndapin3/PACSIN3, which bind to the structurally uncharacterized TRPV4 N terminus. We determined the nuclear magnetic resonance structure of the Syndapin3/PACSIN3 SH3 domain in complex with the TRPV4 N-terminal proline-rich region (PRR), which binds as a class I polyproline II (PPII) helix. This PPII conformation is broken by a conserved proline in a cis conformation. Beyond the PPII, we find that the proximal TRPV4 N terminus is unstructured, a feature conserved across species thus explaining the difficulties in resolving it in previous structural studies. Syndapin/PACSIN SH3 domain binding leads to rigidification of both the PRR and the adjacent PIP 2 binding site. We determined the affinities of the TRPV4 N terminus for PACSIN1, 2, and 3 SH3 domains and PIP 2 and deduce a hierarchical interaction network where Syndapin/PACSIN binding influences the PIP 2 binding site but not vice versa.


  • Organizational Affiliation
    • Institute for Pharmacy and Biochemistry, Johannes Gutenberg-Universität Mainz, 55128 Mainz, Germany; Center for Biomolecular Magnetic Resonance (BMRZ), Goethe-Universität, 60438 Frankfurt am Main, Germany.

Macromolecule Content 

  • Total Structure Weight: 9.02 kDa 
  • Atom Count: 632 
  • Modeled Residue Count: 82 
  • Deposited Residue Count: 82 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
PACSIN 367Gallus gallusMutation(s): 0 
Gene Names: PACSIN3
UniProt
Find proteins for Q1G1I6 (Gallus gallus)
Explore Q1G1I6 
Go to UniProtKB:  Q1G1I6
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ1G1I6
Sequence Annotations
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Reference Sequence
Find similar proteins by:  Sequence   |   3D Structure  
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
PRR15Homo sapiensMutation(s): 0 
UniProt
Find proteins for A0A1D5PXA5 (Gallus gallus)
Explore A0A1D5PXA5 
Go to UniProtKB:  A0A1D5PXA5
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A1D5PXA5
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 10 
  • Selection Criteria: structures with the least restraint violations 

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2018-10-03
    Type: Initial release
  • Version 1.1: 2018-12-19
    Changes: Data collection, Database references
  • Version 1.2: 2019-05-08
    Changes: Data collection
  • Version 1.3: 2024-05-15
    Changes: Data collection, Database references