8R3Y

Cryo EM structure of a stable LGL/aPKC Iota/Par-6 complex

• PDB DOI: https://doi.org/10.2210/pdb8R3Y/pdb
• EM Map EMD-18877: EMDB EMDataResource

• Classification: CYTOSOLIC PROTEIN
• Organism(s): Homo sapiens
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2023-11-10 Released: 2024-11-20 
• Deposition Author(s): Earl, C.P., Briggs, D.C., McDonald, N.Q.
• Funding Organization(s): Wellcome Trust, Cancer Research UK, Medical Research Council (MRC, United Kingdom)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.68 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Starting Models: experimental

Literature

Provisional: Capture, mutual inhibition and release mechanism for aPKC-Par6 and its multi-site Lgl polarity substrate.

Earl, C.P., Cobbaut, M., Barros-Carvalho, A., Ivanova, M., Briggs, D.C., Morais-de-Sa, E., Parker, P.J., McDonald, N.Q.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 

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

Biological Assembly Evidence: electron microscopy, gel filtration

Macromolecule Content

• Total Structure Weight: 152.4 kDa 
• Atom Count: 10,132 
• Modelled Residue Count: 1,293 
• Deposited Residue Count: 1,374 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein kinase C iota type	A [auth I]	338	Homo sapiens	Mutation(s): 0  Gene Names: PRKCI, DXS1179E EC: 2.7.11.13
UniProt & NIH Common Fund Data Resources
Find proteins for P41743 (Homo sapiens) Explore P41743  Go to UniProtKB:  P41743
PHAROS:  P41743 GTEx:  ENSG00000163558

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Lethal(2) giant larvae protein homolog 1	B [auth L]	937	Homo sapiens	Mutation(s): 0  Gene Names: LLGL1, DLG4, HUGL, HUGL1
UniProt & NIH Common Fund Data Resources
Find proteins for Q15334 (Homo sapiens) Explore Q15334  Go to UniProtKB:  Q15334
PHAROS:  Q15334 GTEx:  ENSG00000131899

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Partitioning defective 6 homolog alpha	C [auth P]	99	Homo sapiens	Mutation(s): 0  Gene Names: PARD6A, PAR6A
UniProt & NIH Common Fund Data Resources
Find proteins for Q9NPB6 (Homo sapiens) Explore Q9NPB6  Go to UniProtKB:  Q9NPB6
PHAROS:  Q9NPB6 GTEx:  ENSG00000102981

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ANP	D [auth I]	PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER C10 H17 N6 O12 P3 PVKSNHVPLWYQGJ-KQYNXXCUSA-N

Modified Residues  2 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
TPO	A [auth I]	L-PEPTIDE LINKING	C4 H10 N O6 P		THR
SEP	B [auth L]	L-PEPTIDE LINKING	C3 H8 N O6 P		SER

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.68 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC	2
MODEL REFINEMENT	PHENIX

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-11-20 
Deposition Author(s): Earl, C.P., Briggs, D.C., McDonald, N.Q.

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Funding Organization	Location	Grant Number
Wellcome Trust	United Kingdom	CC2068
Cancer Research UK	United Kingdom	CC2026
Medical Research Council (MRC, United Kingdom)	United Kingdom	CC2068

Revision History  

• Version 1.0: 2024-11-20
  Type: Initial release