3BT4 | pdb_00003bt4

Crystal Structure Analysis of AmFPI-1, fungal protease inhibitor from Antheraea mylitta


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free: 
    0.293 (Depositor), 0.282 (DCC) 
  • R-Value Work: 
    0.249 (Depositor), 0.245 (DCC) 
  • R-Value Observed: 
    0.251 (Depositor) 

wwPDB Validation 3D Report Full Report

Validation slider image for 3BT4

This is version 1.4 of the entry. See complete history

Literature

Crystal structure of a fungal protease inhibitor from Antheraea mylitta

Roy, S.Aravind, P.Madhurantakam, C.Ghosh, A.K.Sankaranarayanan, R.Das, A.K.

(2009) J Struct Biol 166: 79-87

  • DOI: https://doi.org/10.1016/j.jsb.2008.12.010
  • Primary Citation Related Structures: 
    3BT4

  • PubMed Abstract: 

    Indian tasar silk is produced by a wild insect called Antheraea mylitta. Insects do not have any antigen-antibody mediated immune system like vertebrates but they produce a wide variety of effector proteins and peptides possessing potent antifungal and antibacterial activity to combat microbial attack. Antheraea mylitta expresses a fungal protease inhibitor AmFPI-1, in the hemolymph that inhibits alkaline protease of Aspergillus oryzae for protection against fungal infection. AmFPI-1 is purified from the hemolymph, crystallized and the structure is solved using the single isomorphous replacement with anomalous scattering (SIRAS) method to a resolution of 2.1 A. AmFPI-1 is a single domain protein possessing a unique fold that consists of three helices and five beta strands stabilized by a network of six disulfide bonds. The reactive site of AmFPI-1 is located in the loop formed by residues 46-66, wherein Lys54 is the P(1) residue. Superimposition of the loop with reactive sites of other canonical protease inhibitors shows that reactive site conformation of AmFPI-1 is similar to them. The structure of AmFPI-1 provides a framework for the docking of a 1:1 complex between AmFPI-1 and alkaline protease. This study addresses the structural basis of AmFPI-1's specificity towards a fungal serine protease but not to mammalian trypsin and may help in designing specific inhibitors against fungal proteases.


  • Organizational Affiliation
    • Department of Biotechnology, Indian Institute of Technology, Kharagpur 721302, India.

Macromolecule Content 

  • Total Structure Weight: 9.39 kDa 
  • Atom Count: 735 
  • Modeled Residue Count: 85 
  • Deposited Residue Count: 86 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Fungal protease inhibitor-186Antheraea mylittaMutation(s): 0 
UniProt
Find proteins for B0JFB8 (Antheraea mylitta)
Explore B0JFB8 
Go to UniProtKB:  B0JFB8
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupB0JFB8
Sequence Annotations
Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
GOL

Query on GOL



Download:Ideal Coordinates CCD File
B [auth A]GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free:  0.293 (Depositor), 0.282 (DCC) 
  • R-Value Work:  0.249 (Depositor), 0.245 (DCC) 
  • R-Value Observed: 0.251 (Depositor) 
Space Group: P 63 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 60.58α = 90
b = 60.58β = 90
c = 85.065γ = 120
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-2000data collection
SOLVEphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2008-12-30
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Non-polymer description, Version format compliance
  • Version 1.2: 2015-12-09
    Changes: Database references, Derived calculations
  • Version 1.3: 2017-10-25
    Changes: Refinement description
  • Version 1.4: 2024-10-30
    Changes: Data collection, Database references, Derived calculations, Structure summary