3ZEE | pdb_00003zee

Electron cyro-microscopy helical reconstruction of Par-3 N terminal domain

• PDB DOI: https://doi.org/10.2210/pdb3ZEE/pdb
• EM Map EMD-2237: EMDB EMDataResource

• Classification: CELL CYCLE
• Organism(s): Rattus norvegicus
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2012-12-05 Released: 2013-10-16 
• Deposition Author(s): Zhang, Y., Wang, W., Chen, J., Zhang, K., Gao, F., Gong, W., Zhang, M., Sun, F., Feng, W.

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 6.10 Å
• Aggregation State: FILAMENT 
• Reconstruction Method: HELICAL 

Starting Model: experimental

Literature

Structural Insights Into the Intrinsic Self-Assembly of Par-3 N-Terminal Domain.

Zhang, Y., Wang, W., Chen, J., Zhang, K., Gao, F., Gao, B., Zhang, S., Dong, M., Besenbacher, F., Gong, W., Zhang, M., Sun, F., Feng, W.

(2013) Structure 21: 997

• PubMed: 23643951 
• DOI: https://doi.org/10.1016/j.str.2013.04.004
• Primary Citation Related Structures: 
  3ZEE, 4I6P


• PubMed Abstract: 
  

  Par-3, the central organizer of the Par-3/Par-6/atypical protein kinase C complex, is a multimodular scaffold protein that is essential for cell polarity establishment and maintenance. The N-terminal domain (NTD) of Par-3 is capable of self-association to form filament-like structures, although the underlying mechanism is poorly understood. Here, we determined the crystal structure of Par-3 NTD and solved the filament structure by cryoelectron microscopy. We found that an intrinsic "front-to-back" interaction mode is important for Par-3 NTD self-association and that both the lateral and longitudinal packing within the filament are mediated by electrostatic interactions. Disruptions of the lateral or longitudinal packing significantly impaired Par-3 NTD self-association and thereby impacted the Par-3-mediated epithelial polarization. We finally demonstrated that a Par-3 NTD-like domain from histidine ammonia-lyase also harbors a similar self-association capacity. This work unequivocally provides the structural basis for Par-3 NTD self-association and characterizes one type of protein domain that can self-assemble via electrostatic interactions.

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Organizational Affiliation: 
• National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, 15 Datun Road, Beijing 100101, China.

Biological Assembly 1  

Global Symmetry: Helical - H  (Explore in 3D)
Global Stoichiometry: Homo 49-mer - A49 

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

Macromolecule Content 

• Total Structure Weight: 9.55 kDa 
• Atom Count: 670 
• Modeled Residue Count: 84 
• Deposited Residue Count: 84 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PARTITIONING DEFECTIVE 3 HOMOLOG	A	84	Rattus norvegicus	Mutation(s): 0
UniProt
Find proteins for Q9Z340 (Rattus norvegicus) Explore Q9Z340  Go to UniProtKB:  Q9Z340

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 6.10 Å
• Aggregation State: FILAMENT 
• Reconstruction Method: HELICAL 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	IMAGIC

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-10-16 
Deposition Author(s): Zhang, Y., Wang, W., Chen, J., Zhang, K., Gao, F., Gong, W., Zhang, M., Sun, F., Feng, W.

Revision History  

• Version 1.0: 2013-10-16
  Type: Initial release
  
• Version 2.0: 2017-08-30
  Changes: Advisory, Atomic model, Data collection
• Version 2.1: 2024-05-08
  Changes: Data collection, Database references, Derived calculations, Refinement description