Biological Assembly 1  

 3D View: Structure | Electron Density | Validation Report

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 6-mer - A3B2C1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 273.99 kDa 
• Atom Count: 16504 
• Modelled Residue Count: 2087 
• Deposited Residue Count: 2442 
• Unique protein chains: 2

3LVG

Crystal structure of a clathrin heavy chain and clathrin light chain complex

• DOI: 10.2210/pdb3LVG/pdb

• Classification: STRUCTURAL PROTEIN
• Organism(s): Bos taurus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2010-02-20 Released: 2010-06-09 
• Deposition Author(s): Wilbur, J.D., Hwang, P.K., Ybe, J.A., Lane, M., Sellers, B.D., Jacobson, M.P., Fletterick, R.J., Brodsky, F.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 7.94 Å
• R-Value Free: 0.425 
• R-Value Work: 0.419 

Literature

Conformation switching of clathrin light chain regulates clathrin lattice assembly.

Wilbur, J.D., Hwang, P.K., Ybe, J.A., Lane, M., Sellers, B.D., Jacobson, M.P., Fletterick, R.J., Brodsky, F.M.

(2010) Dev Cell 18: 841-848

• PubMed: 20493816 
• DOI: 10.1016/j.devcel.2010.04.007
• Primary Citation of Related Structures:  
  3LVG, 3LVH


• PubMed Abstract: 
  

Clathrin-coated vesicle formation is responsible for membrane traffic to and from the endocytic pathway during receptor-mediated endocytosis and organelle biogenesis, influencing how cells relate to their environment. Generating these vesicles involves self-assembly of clathrin molecules into a latticed coat on membranes that recruits receptors and organizes protein machinery necessary for budding. Here we define a molecular mechanism regulating clathrin lattice formation by obtaining structural information from co-crystals of clathrin subunits. Low resolution X-ray diffraction data (7.9-9.0 A) was analyzed using a combination of molecular replacement with an energy-minimized model and noncrystallographic symmetry averaging. Resulting topological information revealed two conformations of the regulatory clathrin light chain bound to clathrin heavy chain. Based on protein domain positions, mutagenesis, and biochemical assays, we identify an electrostatic interaction between the clathrin subunits that allows the observed conformational variation in clathrin light chains to alter the conformation of the clathrin heavy chain and thereby regulates assembly.

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Organizational Affiliation: 

Graduate Program in Biophysics, University of California, San Francisco, San Francisco, CA 94143, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Clathrin heavy chain 1	A, B, C	624	Bos taurus	Mutation(s): 0  Gene Names: CLTC
UniProt
Find proteins for P49951 (Bos taurus) Explore P49951  Go to UniProtKB:  P49951

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Clathrin light chain B	D, E, F	190	Bos taurus	Mutation(s): 0  Gene Names: CLTB, CLTLB
UniProt
Find proteins for P04975 (Bos taurus) Explore P04975  Go to UniProtKB:  P04975

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 7.94 Å
• R-Value Free: 0.425 
• R-Value Work: 0.419 
• Space Group: I 4₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 228.56	α = 90
b = 228.56	β = 90
c = 710.32	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
PHASER	phasing
CNS	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2010-02-20 
• Released Date: 2010-06-09 
Deposition Author(s): Wilbur, J.D., Hwang, P.K., Ybe, J.A., Lane, M., Sellers, B.D., Jacobson, M.P., Fletterick, R.J., Brodsky, F.M.

Revision History  

• Version 1.0: 2010-06-09
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-08-02
  Changes: Refinement description, Source and taxonomy
• Version 1.3: 2017-11-08
  Changes: Refinement description