Crystal structure of human pancreatic secretory protein ZG16b

Experimental Data Snapshot

  • Resolution: 2.75 Å
  • R-Value Free: 0.283 
  • R-Value Work: 0.220 
  • R-Value Observed: 0.223 

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Crystal structures of human secretory proteins ZG16p and ZG16b reveal a Jacalin-related beta-prism fold

Kanagawa, M.Satoh, T.Ikeda, A.Nakano, Y.Yagi, H.Kato, K.Kojima-Aikawa, K.Yamaguchi, Y.

(2010) Biochem Biophys Res Commun 

  • DOI: https://doi.org/10.1016/j.bbrc.2010.11.093
  • Primary Citation of Related Structures:  
    3APA, 3AQG

  • PubMed Abstract: 

    ZG16p is a secretory protein that mediates condensation-sorting of pancreatic enzymes to the zymogen granule membrane in pancreatic acinar cells. ZG16p interacts with glycosaminoglycans and the binding is considered to be important for condensation-sorting of pancreatic enzymes. ZG16b/PAUF, a paralog of ZG16p, has recently been found to play a role in gene regulation and cancer metastasis. However, the detailed functions of ZG16p and ZG16b remain to be clarified. Here, in order to obtain insights into structure-function relationships, we conducted crystallographic studies of human ZG16p lectin as well as its paralog, ZG16b, and determined their crystal structures at 1.65 and 2.75 Å resolution, respectively. ZG16p has a Jacalin-related β-prism fold, the first to be reported among mammalian lectins. The putative sugar-binding site of ZG16p is occupied by a glycerol molecule, mimicking the mannose bound to Jacalin-related mannose-binding-type plant lectins such as Banlec. ZG16b also has a β-prism fold, but some amino acid residues of the putative sugar-binding site differ from those of the mannose-type binding site suggesting altered preference. A positively charged patch, which may bind sulfated groups of the glycosaminoglycans, is located around the putative sugar-binding site of ZG16p and ZG16b. Taken together, we suggest that the sugar-binding site and the adjacent basic patch of ZG16p and ZG16b cooperatively form a functional glycosaminoglycan-binding site.

  • Organizational Affiliation

    Structural Glycobiology Team, Systems Glycobiology Research Group, Chemical Biology Department, RIKEN Advanced Science Institute, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Zymogen granule protein 16 homolog B
A, B
158Homo sapiensMutation(s): 0 
Gene Names: ZG16BUNQ773/PRO1567
UniProt & NIH Common Fund Data Resources
Find proteins for Q96DA0 (Homo sapiens)
Explore Q96DA0 
Go to UniProtKB:  Q96DA0
GTEx:  ENSG00000162078 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ96DA0
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.75 Å
  • R-Value Free: 0.283 
  • R-Value Work: 0.220 
  • R-Value Observed: 0.223 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 61.39α = 90
b = 66.631β = 90
c = 67.585γ = 90
Software Package:
Software NamePurpose
HKL-2000data collection
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2010-12-08
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2023-11-01
    Changes: Data collection, Database references, Derived calculations, Refinement description