4G5S

Structure of LGN GL3/Galphai3 complex

• PDB DOI: https://doi.org/10.2210/pdb4G5S/pdb

• Classification: CELL CYCLE/SIGNALING PROTEIN
• Organism(s): Homo sapiens, Mus musculus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2012-07-18 Released: 2012-09-05 
• Deposition Author(s): Jia, M., Li, J., Zhu, J., Wen, W., Zhang, M., Wang, W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.62 Å
• R-Value Free: 0.253 
• R-Value Work: 0.207 
• R-Value Observed: 0.210 

Literature

Crystal Structures of the scaffolding protein LGN reveal the general mechanism by which GoLoco binding motifs inhibit the release of GDP from Galphai subunits in G-coupled heterotrimeric proteins

Jia, M., Li, J., Zhu, J., Wen, W., Zhang, M., Wang, W.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly 3  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 3 assigned by authors and generated by PISA (software)

Biological Assembly 4  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 4 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 164.76 kDa 
• Atom Count: 10,226 
• Modelled Residue Count: 1,344 
• Deposited Residue Count: 1,420 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanine nucleotide-binding protein G(k) subunit alpha	A, B, C, D	330	Homo sapiens	Mutation(s): 0  Gene Names: GNAI3
UniProt & NIH Common Fund Data Resources
Find proteins for P08754 (Homo sapiens) Explore P08754  Go to UniProtKB:  P08754
PHAROS:  P08754 GTEx:  ENSG00000065135

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
G-protein-signaling modulator 2	E, F [auth G], G [auth Z], H [auth F]	25	Mus musculus	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q8VDU0 (Mus musculus) Explore Q8VDU0  Go to UniProtKB:  Q8VDU0
IMPC:  MGI:1923373

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GDP	I [auth A], K [auth B], L [auth C]	GUANOSINE-5'-DIPHOSPHATE C10 H15 N5 O11 P2 QGWNDRXFNXRZMB-UUOKFMHZSA-N
CIT	J [auth A], M [auth C]	CITRIC ACID C6 H8 O7 KRKNYBCHXYNGOX-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.62 Å
• R-Value Free: 0.253 
• R-Value Work: 0.207 
• R-Value Observed: 0.210 
• Space Group: P 6₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 209.68	α = 90
b = 209.68	β = 90
c = 235.482	γ = 120

Software Package:

Software Name	Purpose
SCALEPACK	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data collection
HKL-2000	data reduction
MOLREP	phasing
PHENIX	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-09-05 
Deposition Author(s): Jia, M., Li, J., Zhu, J., Wen, W., Zhang, M., Wang, W.

Revision History  

• Version 1.0: 2012-09-05
  Type: Initial release
  
• Version 1.1: 2024-03-20
  Changes: Data collection, Database references, Derived calculations