8CM8

Galectin-8 N-terminal carbohydrate recognition domain in complex with 4-(bromophenyl)phthalazinone D-galactal ligand

• PDB DOI: https://doi.org/10.2210/pdb8CM8/pdb

• Classification: SUGAR BINDING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-02-17 Released: 2024-02-28 
• Deposition Author(s): Van Klaveren, S., Hakansson, M., Diehl, C., Nilsson, N.J.
• Funding Organization(s): H2020 Marie Curie Actions of the European Commission

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.22 Å
• R-Value Free: 0.214 
• R-Value Work: 0.169 
• R-Value Observed: 0.171 

Literature

Halogenated Galactal-Phenylphthalazinone Hybrids as Highly Selective Galectin-8N Ligands

Van Klaveren, S., Nilsson, N.J.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 72.66 kDa 
• Atom Count: 2,804 
• Modelled Residue Count: 296 
• Deposited Residue Count: 634 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Galectin-8	A, B	317	Homo sapiens	Mutation(s): 0  Gene Names: LGALS8
UniProt & NIH Common Fund Data Resources
Find proteins for O00214 (Homo sapiens) Explore O00214  Go to UniProtKB:  O00214
PHAROS:  O00214 GTEx:  ENSG00000116977

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
V19 (Subject of Investigation/LOI)	C [auth A], E [auth B]	4-(4-bromophenyl)-2-[[(2~{R},3~{R},4~{R})-2-(hydroxymethyl)-3-oxidanyl-3,4-dihydro-2~{H}-pyran-4-yl]oxymethyl]phthalazin-1-one C21 H19 Br N2 O5 NMCPEIVYVRUQEU-QWFCFKBJSA-N
CL	D [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.22 Å
• R-Value Free: 0.214 
• R-Value Work: 0.169 
• R-Value Observed: 0.171 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 54.71	α = 90
b = 62.28	β = 90
c = 84.75	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
xia2	data reduction
Aimless	data scaling
PHASER	phasing
Coot	model building

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-02-28 
Deposition Author(s): Van Klaveren, S., Hakansson, M., Diehl, C., Nilsson, N.J.

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Funding Organization	Location	Grant Number
H2020 Marie Curie Actions of the European Commission	European Union	765581

Revision History  

• Version 1.0: 2024-02-28
  Type: Initial release