MPZL1 mutant - V145G, Q146K, P147T and G148S

Experimental Data Snapshot

  • Resolution: 2.40 Å
  • R-Value Free: 0.252 
  • R-Value Work: 0.220 
  • R-Value Observed: 0.222 

wwPDB Validation   3D Report Full Report

This is version 1.2 of the entry. See complete history


Structural and biochemical studies of the extracellular domain of Myelin protein zero-like protein 1

Yu, T.Liang, L.Zhao, X.Yin, Y.

(2018) Biochem Biophys Res Commun 506: 883-890

  • DOI: https://doi.org/10.1016/j.bbrc.2018.10.161
  • Primary Citation of Related Structures:  
    6IGO, 6IGT, 6IGW

  • PubMed Abstract: 

    Myelin protein zero-like protein 1 (MPZL1) is a member of the immunoglobulin superfamily, and is also a receptor of concanavalin A (ConA). MPZL1 is upregulated in hepatocellular carcinoma (HCC) and accelerates migration of HCC cells. However, function of MPZL1 as a receptor of ConA and its role in HCC development are largely unknown. To elucidate the functional basis, we have determined the crystal structure of the extracellular domain of MPZL1 at 2.7 Å resolution. Overall, it folds like a typical immunoglobulin variable-like domain that is much like MPZ. Unexpectedly, we found Asn50 is a unique glycosylation site and the glycosylation mediates its interaction with ConA. Furthermore, we also found that MPZL1 exists as a homodimer in the crystal, in which hydrogen bonds between Ser86 and Val145 play an important role. Our results demonstrate that glycosylation of Asn50 is essential for its function as a receptor of ConA. We propose that dimerization of MPZL1 participates in control of its signal transmission in cell adhesion.

  • Organizational Affiliation

    Peking-Tsinghua Center for Life Sciences, Peking University, Beijing, 100871, China.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Myelin protein zero-like protein 1
A, B, C, D
135Homo sapiensMutation(s): 4 
Gene Names: MPZL1
UniProt & NIH Common Fund Data Resources
Find proteins for O95297 (Homo sapiens)
Explore O95297 
Go to UniProtKB:  O95297
PHAROS:  O95297
GTEx:  ENSG00000197965 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO95297
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.40 Å
  • R-Value Free: 0.252 
  • R-Value Work: 0.220 
  • R-Value Observed: 0.222 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 40.425α = 90
b = 40.417β = 90.26
c = 195.223γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report

Entry History 

Deposition Data

  • Released Date: 2018-11-28 
  • Deposition Author(s): Yu, T.

Revision History  (Full details and data files)

  • Version 1.0: 2018-11-28
    Type: Initial release
  • Version 1.1: 2018-12-05
    Changes: Data collection, Database references
  • Version 1.2: 2023-11-22
    Changes: Data collection, Database references, Refinement description