Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 15321.16 
• Atom Count: 1076 
• Residue Count: 128 
• Unique protein chains: 1

1DV8

CRYSTAL STRUCTURE OF THE CARBOHYDRATE RECOGNITION DOMAIN OF THE H1 SUBUNIT OF THE ASIALOGLYCOPROTEIN RECEPTOR

• DOI: 10.2210/pdb1DV8/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli


• Deposited: 2000-01-20 Released: 2000-07-26 
• Deposition Author(s): Meier, M., Bider, M.D., Malashkevich, V.N., Spiess, M., Burkhard, P.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.3 Å
• R-Value Free: 0.247 
• R-Value Work: 0.195 

Literature

Crystal structure of the carbohydrate recognition domain of the H1 subunit of the asialoglycoprotein receptor.

Meier, M., Bider, M.D., Malashkevich, V.N., Spiess, M., Burkhard, P.

(2000) J.Mol.Biol. 300: 857-865

• PubMed: 10891274 
• DOI: 10.1006/jmbi.2000.3853


• PubMed Abstract: 
  

The human asialoglycoprotein receptor (ASGPR), also called hepatic lectin, is an integral membrane protein and is responsible for the clearance of desialylated, galactose-terminal glycoproteins from the circulation by receptor-mediated endocytosis. It can be subdivided into four functional domains: the cytosolic domain, the transmembrane domain, the stalk and the carbohydrate recognition domain (CRD). The galactose-binding domains belong to the superfamily of C-type (calcium-dependent) lectins, in particular to the long-form subfamily with three conserved intramolecular disulphide bonds. It is able to bind terminal non-reducing galactose residues and N-acetyl-galactosamine residues of desialated tri or tetra-antennary N-linked glycans. The ASGPR is a potential liver-specific receptor for hepatitis B virus and Marburg virus and has been used to target exogenous molecules specifically to hepatocytes for diagnostic and therapeutic purposes.Here, we present the X-ray crystal structure of the carbohydrate recognition domain of the major subunit H1 at 2.3 A resolution. While the overall fold of this and other known C-type lectin structures are well conserved, the positions of the bound calcium ions are not, indicating that the fold is stabilised by alternative mechanisms in different branches of the C-type lectin family. It is the first CRD structure where three calcium ions form an intergral part of the structure. In addition, the structure provides direct confirmation for the conversion of the ligand-binding site of the mannose-binding protein to an asialoglycoprotein receptor-like specificity suggested by Drickamer and colleagues. In agreement with the prediction that the coiled-coil domain of the ASGPR is separated from the CRD and its N-terminal disulphide bridge by several residues, these residues are indeed not alpha-helical, while in tetranectin they form an alpha-helical coiled-coil.

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Related Citations: 

• Mechanism of N-Acetylgalactosamine Binding to a C-type Animal Lectin Carbohydrate-recognition Domain
  Kolatkar, A.R.,Leung, A.K.,Isecke, R.,Brossmer, R.,Drickamer, K.,Weis, W.I.
  (1998) J.Biol.Chem. 273: 19502




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Organizational Affiliation: 

M.E. Müller Institute for Structural Biology, University of Basel, Klingelbergstrasse 70 CH-4056 Basel, Switzerland.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
ASIALOGLYCOPROTEIN RECEPTOR 1	A	128	Homo sapiens	Mutation(s): 0  Gene Names: ASGR1 (CLEC4H1)
Find proteins for P07306 (Homo sapiens) Go to Gene View: ASGR1 Go to UniProtKB:  P07306

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
CL	A	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M
CA	A	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.3 Å
• R-Value Free: 0.247 
• R-Value Work: 0.195 
• Space Group: C 1 2 1

Unit Cell:

Length (Å)	Angle (°)
a = 113.720	α = 90.00
b = 32.460	β = 91.29
c = 40.820	γ = 90.00

Software Package:

Software Name	Purpose
CNS	refinement
AMoRE	phasing
CCP4	data scaling
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2000-01-20 
• Released Date: 2000-07-26 
• Deposition Author(s): Meier, M., Bider, M.D., Malashkevich, V.N., Spiess, M., Burkhard, P.

Revision History 

• Version 1.0: 2000-07-26
  Type: Initial release
• Version 1.1: 2008-04-27
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance