8HPX | pdb_00008hpx

Structure of mouse LGI1 LRR domain in space group P65

• PDB DOI: https://doi.org/10.2210/pdb8HPX/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Mus musculus
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2022-12-13 Released: 2023-12-13 
• Deposition Author(s): Liu, H., Xu, F.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.68 Å
• R-Value Free: 
  0.251 (Depositor), 0.260 (DCC) 
• R-Value Work: 
  0.220 (Depositor), 0.230 (DCC) 
• R-Value Observed: 
  0.222 (Depositor) 

Starting Model: experimental

Literature

Structure of mouse LGI1 LRR domain in space group P65

Liu, H., Xu, F.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 46.3 kDa 
• Atom Count: 2,882 
• Modeled Residue Count: 362 
• Deposited Residue Count: 404 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Leucine-rich glioma-inactivated protein 1	A, B	202	Mus musculus	Mutation(s): 0  Gene Names: Lgi1
UniProt
Find proteins for Q9JIA1 (Mus musculus) Explore Q9JIA1  Go to UniProtKB:  Q9JIA1
Glycosylation
Glycosylation Sites: 1		Go to GlyGen: Q9JIA1-1

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	C [auth A], D [auth B]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.68 Å
• R-Value Free:  0.251 (Depositor), 0.260 (DCC) 
• R-Value Work:  0.220 (Depositor), 0.230 (DCC) 
• R-Value Observed: 0.222 (Depositor) 

Space Group: P 6₅

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 90.952	α = 90
b = 90.952	β = 90
c = 191.228	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-12-13 
Deposition Author(s): Liu, H., Xu, F.

---

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	31270767

Revision History  

• Version 1.0: 2023-12-13
  Type: Initial release
  
• Version 1.1: 2024-10-23
  Changes: Structure summary