6INO

Crystal structure of the CysR-CTLD2 fragment of human MR at acidic pH (pH 4.6)

  • Classification: IMMUNE SYSTEM
  • Organism(s): Homo sapiens
  • Expression System: Trichoplusia ni
  • Mutation(s): No 

  • Deposited: 2018-10-26 Released: 2019-09-18 
  • Deposition Author(s): Hu, Z., He, Y.
  • Funding Organization(s): National Natural Science Foundation of China, Chinese Academy of Sciences

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.05 Å
  • R-Value Free: 0.214 
  • R-Value Work: 0.177 
  • R-Value Observed: 0.179 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structural basis of the pH-dependent conformational change of the N-terminal region of human mannose receptor/CD206.

Hu, Z.Wang, Y.Cheng, C.He, Y.

(2019) J Struct Biol 208: 107384-107384

  • DOI: 10.1016/j.jsb.2019.09.001
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • Mannose receptor (MR, CD206) is an immune receptor highly expressed on macrophages and plays important roles in glycoprotein clearance, immune response and matrix turnover. Previous studies have shown that MR recognizes multiple ligands and recycles ...

    Mannose receptor (MR, CD206) is an immune receptor highly expressed on macrophages and plays important roles in glycoprotein clearance, immune response and matrix turnover. Previous studies have shown that MR recognizes multiple ligands and recycles between cell surface and endosomes, and the conformation and ligand binding of MR are regulated by environmental pH. However, due to the lack of high-resolution details, the mechanisms of the pH-dependent properties of MR have not been fully understood. Here we investigate the pH-dependent conformational change of MR by solving a series of crystal structures of MR N-terminal fragments (CysR~CTLD2/3) at pH ranging from 4.0 to 8.5. The results show that the CTLD3 domain plays a critical role in regulating the conformational change of the N-terminal region of MR by forming interactions with the CTLD2 domain specifically at acidic pH. Moreover, the structural data also show the conformational changes of the 4-SO 4 -GalNAc binding pocket at the CysR domain, which might be relevant to the binding and release of the ligand. Overall, these results provide a model for the pH-dependent conformational change of the N-terminal region of MR that may help to understand its functional mechanism at molecular level.


    Organizational Affiliation

    National Center for Protein Science Shanghai, Shanghai Science Research Center; CAS Center for Excellence in Molecular Cell Science, Shanghai Institute of Biochemistry and Cell Biology, Chinese Academy of Sciences; University of Chinese Academy of Sciences, Shanghai, China. Electronic address: he@sibcb.ac.cn.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Macrophage mannose receptor 1
A, B
475Homo sapiensMutation(s): 0 
Gene Names: MRC1CLEC13DCLEC13DLMRC1L1
Find proteins for P22897 (Homo sapiens)
Go to UniProtKB:  P22897
NIH Common Fund Data Resources
PHAROS  P22897
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.05 Å
  • R-Value Free: 0.214 
  • R-Value Work: 0.177 
  • R-Value Observed: 0.179 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 238.484α = 90
b = 74.394β = 114.24
c = 108.756γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-3000data reduction
HKL-3000data scaling
PHENIXphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data

  • Deposited Date: 2018-10-26 
  • Released Date: 2019-09-18 
  • Deposition Author(s): Hu, Z., He, Y.

Funding OrganizationLocationGrant Number
National Natural Science Foundation of ChinaChina31270772
Chinese Academy of SciencesChinaXDB08020102

Revision History 

  • Version 1.0: 2019-09-18
    Type: Initial release
  • Version 1.1: 2019-12-11
    Changes: Database references
  • Version 1.2: 2020-03-25
    Changes: Database references