6RH6 | pdb_00006rh6

Solution structure and 1H, 13C and 15N chemical shift assignments for the complex of NECAP1 PHear domain with phosphorylated AP2 mu2 148-163

• PDB DOI: https://doi.org/10.2210/pdb6RH6/pdb
• BMRB: 34395

• Classification: ENDOCYTOSIS
• Organism(s): Homo sapiens, Rattus norvegicus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2019-04-18 Released: 2019-09-04 
• Deposition Author(s): Owen, D.J., Neuhaus, D., Yang, J.-C., Herrmann, T.
• Funding Organization(s): Wellcome Trust, Medical Research Council (United Kingdom), European Communitys Seventh Framework Programme, Czech Science Foundation

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 50 
• Conformers Submitted: 30 
• Selection Criteria: structures with the lowest energy 

Literature

Temporal Ordering in Endocytic Clathrin-Coated Vesicle Formation via AP2 Phosphorylation.

Wrobel, A.G., Kadlecova, Z., Kamenicky, J., Yang, J.C., Herrmann, T., Kelly, B.T., McCoy, A.J., Evans, P.R., Martin, S., Muller, S., Sroubek, F., Neuhaus, D., Honing, S., Owen, D.J.

(2019) Dev Cell 50: 494-508.e11

• PubMed: 31430451 
• DOI: https://doi.org/10.1016/j.devcel.2019.07.017
• Primary Citation Related Structures: 
  6QH5, 6QH6, 6QH7, 6RH5, 6RH6


• PubMed Abstract: 
  

  Clathrin-mediated endocytosis (CME) is key to maintaining the transmembrane protein composition of cells' limiting membranes. During mammalian CME, a reversible phosphorylation event occurs on Thr156 of the μ2 subunit of the main endocytic clathrin adaptor, AP2. We show that this phosphorylation event starts during clathrin-coated pit (CCP) initiation and increases throughout CCP lifetime. μ2Thr156 phosphorylation favors a new, cargo-bound conformation of AP2 and simultaneously creates a binding platform for the endocytic NECAP proteins but without significantly altering AP2's cargo affinity in vitro. We describe the structural bases of both. NECAP arrival at CCPs parallels that of clathrin and increases with μ2Thr156 phosphorylation. In turn, NECAP recruits drivers of late stages of CCP formation, including SNX9, via a site distinct from where NECAP binds AP2. Disruption of the different modules of this phosphorylation-based temporal regulatory system results in CCP maturation being delayed and/or stalled, hence impairing global rates of CME.

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Organizational Affiliation: 
• CIMR, WT/MRC Building, Hills Road, Cambridge CB2 0QQ, UK.
CIMR, WT/MRC Building, Hills Road, Cambridge CB2 0QQ, UK. Electronic address: [e-mail].
Czech Academy of Sciences, Institute of Information Theory and Automation, Pod Vodarenskou vezi 4, 182 08 Prague 8, Czech Republic.
MRC Laboratory of Molecular Biology, Cambridge Biomedical Campus, Francis Crick Avenue, Cambridge CB2 0QH, UK.
University of Grenoble Alpes, CNRS, CEA, IBS, 38000 Grenoble, France.
The Francis Crick Institute, 1 Midland Road, London NW1 1ST, UK.
Center for Molecular Medicine (CMMC), University of Cologne, Robert-Koch-Straße 21, 50931 Cologne, Germany.
Institute for Biochemistry I, Medical Faulty, University of Cologne, Joseph-Stelzmann-Straße 52, 50931 Cologne, Germany.
Institute for Biochemistry I, Medical Faulty, University of Cologne, Joseph-Stelzmann-Straße 52, 50931 Cologne, Germany. Electronic address: [e-mail].

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 Evidence: isothermal titration calorimetry

Macromolecule Content 

• Total Structure Weight: 17.36 kDa 
• Atom Count: 1,224 
• Modeled Residue Count: 153 
• Deposited Residue Count: 153 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Adaptin ear-binding coat-associated protein 1	A	138	Homo sapiens	Mutation(s): 0  Gene Names: NECAP1
UniProt & NIH Common Fund Data Resources
Find proteins for Q8NC96 (Homo sapiens) Explore Q8NC96  Go to UniProtKB:  Q8NC96
PHAROS:  Q8NC96 GTEx:  ENSG00000089818

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
AP-2 complex subunit mu	B	15	Rattus norvegicus	Mutation(s): 0
UniProt
Find proteins for P84092 (Rattus norvegicus) Explore P84092  Go to UniProtKB:  P84092

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
TPO	B	L-PEPTIDE LINKING	C4 H10 N O6 P		THR

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 50 
• Conformers Submitted: 30 
• Selection Criteria: structures with the lowest energy 

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2019-09-04 
Deposition Author(s): Owen, D.J., Neuhaus, D., Yang, J.-C., Herrmann, T.

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Funding Organization	Location	Grant Number
Wellcome Trust	United Kingdom	090909/Z/09/Z
Wellcome Trust	United Kingdom	097040/Z/11/Z
Medical Research Council (United Kingdom)	United Kingdom	U105178934
European Communitys Seventh Framework Programme		PIOF-GA-2012-330268
Czech Science Foundation	Czech Republic	GA18-05360S

Revision History  

• Version 1.0: 2019-09-04
  Type: Initial release
  
• Version 1.1: 2024-11-13
  Changes: Data collection, Database references, Structure summary