9QY1 | pdb_00009qy1

Endo180 (uPARAP) carbohydrate-recognition domain 2 with bound methyl fucoside

• PDB DOI: https://doi.org/10.2210/pdb9QY1/pdb

• Classification: SUGAR BINDING PROTEIN
• Organism(s): Bos taurus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2025-04-16 Released: 2025-05-28 
• Deposition Author(s): Drickamer, K., Feinberg, H., Weis, W.I., Taylor, M.E., Jegouzo, S.A.F.
• Funding Organization(s): UK Research and Innovation (UKRI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 
  0.239 (Depositor), 0.238 (DCC) 
• R-Value Work: 
  0.184 (Depositor), 0.184 (DCC) 
• R-Value Observed: 
  0.186 (Depositor) 

Starting Model: experimental

Literature

Sugar binding activity of the endothelial receptor Endo180

Jegouzo, S.A.F., Feinberg, H., Lasanajak, Y., Smith, D.H., Weis, W.I., Drickamer, K., Taylor, M.E.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: homology

Macromolecule Content 

• Total Structure Weight: 15.22 kDa 
• Atom Count: 1,134 
• Modeled Residue Count: 126 
• Deposited Residue Count: 128 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Mannose receptor C type 2	A	128	Bos taurus	Mutation(s): 0  Gene Names: MRC2
UniProt
Find proteins for A0A3Q1M5H7 (Bos taurus) Explore A0A3Q1M5H7  Go to UniProtKB:  A0A3Q1M5H7

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MFU (Subject of Investigation/LOI)	D [auth A]	methyl alpha-L-fucopyranoside C7 H14 O5 OHWCAVRRXKJCRB-CXNFULCWSA-N
CA (Subject of Investigation/LOI)	B [auth A], C [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free:  0.239 (Depositor), 0.238 (DCC) 
• R-Value Work:  0.184 (Depositor), 0.184 (DCC) 
• R-Value Observed: 0.186 (Depositor) 

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 45.65	α = 90
b = 66.56	β = 90
c = 37.23	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-05-28 
Deposition Author(s): Drickamer, K., Feinberg, H., Weis, W.I., Taylor, M.E., Jegouzo, S.A.F.

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Funding Organization	Location	Grant Number
UK Research and Innovation (UKRI)	United Kingdom	BB/V014137/1

Revision History  

• Version 1.0: 2025-05-28
  Type: Initial release