2RRI | pdb_00002rri

NMR structure of vasoactive intestinal peptide in DPC Micelle


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 200 
  • Conformers Submitted: 20 
  • Selection Criteria: target function 

wwPDB Validation 3D Report Full Report

Validation slider image for 2RRI

This is version 1.4 of the entry. See complete history

Literature

Structural difference of vasoactive intestinal peptide in two distinct membrane-mimicking environments

Umetsu, Y.Tenno, T.Goda, N.Shirakawa, M.Ikegami, T.Hiroaki, H.

(2011) Biochim Biophys Acta 1814: 724-730

  • DOI: https://doi.org/10.1016/j.bbapap.2011.03.009
  • Primary Citation Related Structures: 
    2RRH, 2RRI

  • PubMed Abstract: 

    Vasoactive intestinal peptide (VIP) is a 28-amino acid neuropeptide which belongs to a glucagon/secretin superfamily, the ligand of class II G protein-coupled receptors. Knowledge for the conformation of VIP bound to membrane is important because the receptor activation is initiated by membrane binding of VIP. We have previously observed that VIP-G (glycine-extended VIP) is unstructured in solution, as evidenced by the limited NMR chemical shift dispersion. In this study, we determined the three-dimensional structures of VIP-G in two distinct membrane-mimicking environments. Although these are basically similar structures composed of a disordered N-terminal region and a long α-helix, micelle-bound VIP-G has a curved α-helix. The side chains of residues Phe(6), Tyr(10), Leu(13), and Met(17) found at the concave face form a hydrophobic patch in the micelle-bound state. The structural differences in two distinct membrane-mimicking environments show that the micelle-bound VIP-G localized at the water-micelle boundary with these side chains toward micelle interior. In micelle-bound PACAP-38 (one of the glucagon/secretin superfamily peptide) structure, the identical hydrophobic residues form the micelle-binding interface. This result suggests that these residues play an important role for the membrane binding of VIP and PACAP.


  • Organizational Affiliation
    • Graduate School of Medicine, Kobe University, Chuo-ku, Kobe, Hyogo, Japan.

Macromolecule Content 

  • Total Structure Weight: 3.39 kDa 
  • Atom Count: 237 
  • Modeled Residue Count: 29 
  • Deposited Residue Count: 29 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Vasoactive intestinal peptide29Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P01282 (Homo sapiens)
Explore P01282 
Go to UniProtKB:  P01282
PHAROS:  P01282
GTEx:  ENSG00000146469 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP01282
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 200 
  • 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: 2011-04-06
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2011-12-28
    Changes: Database references
  • Version 1.3: 2023-06-14
    Changes: Data collection, Database references, Other
  • Version 1.4: 2024-05-15
    Changes: Data collection, Database references