5GYL | pdb_00005gyl

Structure of Cicer arietinum 11S gloubulin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 
    0.225 (Depositor), 0.226 (DCC) 
  • R-Value Work: 
    0.205 (Depositor), 0.210 (DCC) 
  • R-Value Observed: 
    0.206 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.4 of the entry. See complete history

Literature

Crystallization and crystallographic studies of a novel chickpea 11S globulin.

Sun, L.Zhou, A.Zhang, F.

(2022) Acta Crystallogr F Struct Biol Commun 78: 324-329

  • DOI: https://doi.org/10.1107/S2053230X22007919
  • Primary Citation Related Structures: 
    5GYL

  • PubMed Abstract: 

    Chickpea is a crop that is known as a source of high-quality proteins. CL-AI, which belongs to the 11S globulin and cupin superfamily, was initially identified in chickpea seeds. CL-AI has recently been shown to inhibit various types of α-amylases. To determine its molecular mechanism, the crystal structure of CL-AI was solved at a final resolution of 2.2 Å. Structural analysis indicated that each asymmetric unit contains three molecules with threefold symmetry and a head-to-tail association, and each molecule is divided into an α-chain and a β-chain. CL-AI has high structural similarity to other 11S globulins and canonical metal-dependent enzyme-related cupin proteins, whereas its stimilarity to α-amylase inhibitor from Phaseolus vulgaris is quite low. The structure presented here will provide insight into the function of CL-AI.


  • Organizational Affiliation
    • Department of Dermatology, People's Hospital of SND, Suzhou, Jiangsu 215129, People's Republic of China.

Macromolecule Content 

  • Total Structure Weight: 162.74 kDa 
  • Atom Count: 9,065 
  • Modeled Residue Count: 1,141 
  • Deposited Residue Count: 1,437 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
legumin-like protein
A, B, C
479Cicer arietinumMutation(s): 0 

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free:  0.225 (Depositor), 0.226 (DCC) 
  • R-Value Work:  0.205 (Depositor), 0.210 (DCC) 
  • R-Value Observed: 0.206 (Depositor) 
Space Group: I 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 97.37α = 90
b = 100.61β = 96.1
c = 131.124γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
iMOSFLMdata collection
Aimlessdata reduction
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2017-10-04
    Type: Initial release
  • Version 1.1: 2018-02-07
    Changes: Database references
  • Version 1.2: 2022-09-14
    Changes: Database references, Refinement description
  • Version 1.3: 2023-11-29
    Changes: Data collection, Refinement description
  • Version 1.4: 2024-11-06
    Changes: Structure summary