6WAB | pdb_00006wab

Crystal structure of human galectin-4 C-terminal carbohydrate recognition domain in complex with galactose derivative

• PDB DOI: https://doi.org/10.2210/pdb6WAB/pdb

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


• Deposited: 2020-03-25 Released: 2021-04-07 
• Deposition Author(s): Go, R.M., Kishor, C., Blanchard, H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.28 Å
• R-Value Free: 
  0.266 (Depositor), 0.270 (DCC) 
• R-Value Work: 
  0.197 (Depositor), 0.200 (DCC) 

Starting Model: experimental

Literature

Crystal structure of human galectin-4 C-terminal carbohydrate recognition domain in complex with galactose derivative

Go, R.M., Kishor, C., Blanchard, H.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Biological Assembly 3  

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

Biological assembly 3 assigned by authors.

Biological Assembly 4  

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

Biological assembly 4 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 62.88 kDa 
• Atom Count: 4,518 
• Modeled Residue Count: 551 
• Deposited Residue Count: 560 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Galectin-4	A, B, C, D	140	Homo sapiens	Mutation(s): 0  Gene Names: LGALS4
UniProt & NIH Common Fund Data Resources
Find proteins for P56470 (Homo sapiens) Explore P56470  Go to UniProtKB:  P56470
PHAROS:  P56470 GTEx:  ENSG00000171747

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
U61 (Subject of Investigation/LOI)	E [auth A], H [auth B]	2,6-anhydro-1,4-dideoxy-1-[4-(4-fluorophenyl)-1H-1,2,3-triazol-1-yl]-4-(4-phenyl-1H-1,2,3-triazol-1-yl)-D-glycero-L-manno-heptitol C23 H23 F N6 O4 SRBNPRKOXDJHBB-NQQQLTFYSA-N
GOL	F [auth A], G [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.28 Å
• R-Value Free:  0.266 (Depositor), 0.270 (DCC) 
• R-Value Work:  0.197 (Depositor), 0.200 (DCC) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 45.698	α = 90
b = 128.558	β = 101.219
c = 45.891	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2021-04-07 
Deposition Author(s): Go, R.M., Kishor, C., Blanchard, H.

Revision History  

• Version 1.0: 2021-04-07
  Type: Initial release
  
• Version 1.1: 2023-10-18
  Changes: Data collection, Database references, Refinement description