Biological Assembly 1  

 3D View: Structure | 1D-3D View | Validation Report

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 30.89 kDa 
• Atom Count: 2133 
• Modelled Residue Count: 269 
• Deposited Residue Count: 273 
• Unique protein chains: 2

2PJH

Strctural Model of the p97 N domain- npl4 UBD complex

• PDB DOI: 10.2210/pdb2PJH/pdb

• Classification: TRANSPORT PROTEIN
• Organism(s): Mus musculus
• Expression System: Escherichia coli BL21, Escherichia coli
• Mutation(s): No 


• Deposited: 2007-04-16 Released: 2007-05-08 
• Deposition Author(s): Isaacson, R., Pye, V.E., Simpson, S., Meyer, H.H., Zhang, X., Freemont, P.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Submitted: 1 

Literature

Detailed structural insights into the p97-Npl4-Ufd1 interface.

Isaacson, R.L., Pye, V.E., Simpson, P., Meyer, H.H., Zhang, X., Freemont, P.S., Matthews, S.

(2007) J Biol Chem 282: 21361-21369

• PubMed: 17491009 
• DOI: 10.1074/jbc.M610069200
• Primary Citation of Related Structures:  
  2PJH


• PubMed Abstract: 
  

The AAA ATPase, p97, achieves its versatility through binding to a wide range of cofactor proteins that adapt it to different cellular functions. The heterodimer UN (comprising Ufd1 and Npl4) is an adaptor complex that recruits p97 for numerous tasks, many of which involve the ubiquitin pathway. Insights into the structural specificity of p97 for its UN adaptor are currently negligible. Here, we present the solution structure of the Npl4 "ubiquitin-like" domain (UBD), which adopts a beta-grasp fold with a 3(10) helical insert. Moreover we performed a chemical shift perturbation analysis of its binding surface with the p97 N domain. We assigned the backbone amides of the p97 N domain and probed both its reciprocal binding surface with Npl4 UBD and its interaction with the p97-binding region of Ufd1. NMR data recorded on a 400-kDa full-length UN-hexamer p97 complex reveals an identical mode of interaction. We calculated a structural model for the p97 N-Npl4 UBD complex, and a comparison with the p97-p47 adaptor complex reveals subtle differences in p97 adaptor recognition and specificity.

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Organizational Affiliation: 

Division of Molecular Biosciences, Imperial College London, Biochemistry Building, South Kensington, London SW7 2AZ, United Kingdom.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Nuclear protein localization protein 4 homolog	A	80	Mus musculus	Mutation(s): 0  Gene Names: p97, Nploc4, Kiaa1499, Npl4
UniProt & NIH Common Fund Data Resources
Find proteins for P60670 (Mus musculus) Explore P60670  Go to UniProtKB:  P60670
IMPC:  MGI:2679787

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Transitional endoplasmic reticulum ATPase	B	193	Mus musculus	Mutation(s): 0  Gene Names: npl4, Vcp EC: 3.6.4.6
UniProt
Find proteins for Q01853 (Mus musculus) Explore Q01853  Go to UniProtKB:  Q01853

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Submitted: 1 
• OLDERADO: 2PJH Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2007-04-16 
• Released Date: 2007-05-08 
Deposition Author(s): Isaacson, R., Pye, V.E., Simpson, S., Meyer, H.H., Zhang, X., Freemont, P.

Revision History  

• Version 1.0: 2007-05-08
  Type: Initial release
  
• Version 1.1: 2007-10-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2022-03-16
  Changes: Database references, Derived calculations