2LQX | pdb_00002lqx

NMR spatial structure of the trypsin inhibitor BWI-2c from the buckwheat seeds


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 2LQX

This is version 1.3 of the entry. See complete history

Literature

Buckwheat trypsin inhibitor with helical hairpin structure belongs to a new family of plant defence peptides.

Oparin, P.B.Mineev, K.S.Dunaevsky, Y.E.Arseniev, A.S.Belozersky, M.A.Grishin, E.V.Egorov, T.A.Vassilevski, A.A.

(2012) Biochem J 446: 69-77

  • DOI: https://doi.org/10.1042/BJ20120548
  • Primary Citation Related Structures: 
    2LQX

  • PubMed Abstract: 

    A new peptide trypsin inhibitor named BWI-2c was obtained from buckwheat (Fagopyrum esculentum) seeds by sequential affinity, ion exchange and reversed-phase chromatography. The peptide was sequenced and found to contain 41 amino acid residues, with four cysteine residues involved in two intramolecular disulfide bonds. Recombinant BWI-2c identical to the natural peptide was produced in Escherichia coli in a form of a cleavable fusion with thioredoxin. The 3D (three-dimensional) structure of the peptide in solution was determined by NMR spectroscopy, revealing two antiparallel α-helices stapled by disulfide bonds. Together with VhTI, a trypsin inhibitor from veronica (Veronica hederifolia), BWI-2c represents a new family of protease inhibitors with an unusual α-helical hairpin fold. The linker sequence between the helices represents the so-called trypsin inhibitory loop responsible for direct binding to the active site of the enzyme that cleaves BWI-2c at the functionally important residue Arg(19). The inhibition constant was determined for BWI-2c against trypsin (1.7×10(-1)0 M), and the peptide was tested on other enzymes, including those from various insect digestive systems, revealing high selectivity to trypsin-like proteases. Structural similarity shared by BWI-2c, VhTI and several other plant defence peptides leads to the acknowledgement of a new widespread family of plant peptides termed α-hairpinins.


  • Organizational Affiliation
    • M. M. Shemyakin and Yu. A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, ul. Miklukho-Maklaya, 16/10, 117997 Moscow, Russia.

Macromolecule Content 

  • Total Structure Weight: 5.2 kDa 
  • Atom Count: 357 
  • Modeled Residue Count: 41 
  • Deposited Residue Count: 41 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Trypsin inhibitor BWI-2c41Fagopyrum esculentumMutation(s): 0 
UniProt
Find proteins for P86794 (Fagopyrum esculentum)
Explore P86794 
Go to UniProtKB:  P86794
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP86794
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: 2012-05-30
    Type: Initial release
  • Version 1.1: 2012-08-08
    Changes: Database references
  • Version 1.2: 2023-06-14
    Changes: Data collection, Database references, Other
  • Version 1.3: 2024-11-06
    Changes: Data collection, Database references, Structure summary