Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Cyclic - C6  (3D View)
Global Stoichiometry: Homo 6-mer - A6 

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

Macromolecule Content

• Total Structure Weight: 51.45 kDa 
• Atom Count: 3414 
• Residue Count: 438 
• Unique protein chains: 1

1E32

Structure of the N-Terminal domain and the D1 AAA domain of membrane fusion ATPase p97

• DOI: 10.2210/pdb1E32/pdb

• Classification: ATPASE
• Organism(s): Mus musculus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2000-06-05 Released: 2001-05-31 
• Deposition Author(s): Zhang, X., Shaw, A., Bates, P.A., Gorman, M.A., Kondo, H., Dokurno, P., Leonard M, G., Sternberg, J.E., Freemont, P.S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 0.283 
• R-Value Work: 0.224 
• R-Value Observed: 0.224 

Literature

Structure of the Aaa ATPase P97

Zhang, X., Shaw, A., Bates, P.A., Newman, R.H., Gowen, B., Orlova, E., Gorman, M.A., Kondo, H., Dokurno, P., Lally, J., Leonard, G., Meyer, H., Van Heel, M., Freemont, P.S.

(2000) Mol Cell 6: 1473

• PubMed: 11163219 
• DOI: 10.1016/s1097-2765(00)00143-x
• Primary Citation of Related Structures:  
  1E32


• PubMed Abstract: 
  

p97, an abundant hexameric ATPase of the AAA family, is involved in homotypic membrane fusion. It is thought to disassemble SNARE complexes formed during the process of membrane fusion. Here, we report two structures: a crystal structure of the N-terminal and D1 ATPase domains of murine p97 at 2.9 A resolution, and a cryoelectron microscopy structure of full-length rat p97 at 18 A resolution. Together, these structures show that the D1 and D2 hexamers pack in a tail-to-tail arrangement, and that the N domain is flexible. A comparison with NSF D2 (ATP complex) reveals possible conformational changes induced by ATP hydrolysis. Given the D1 and D2 packing arrangement, we propose a ratchet mechanism for p97 during its ATP hydrolysis cycle.

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Organizational Affiliation: 

Molecular Structure and Function Laboratory, Imperial Cancer Research Fund, London SW7 2AY, United Kingdom.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
P97	A	458	Mus musculus	Mutation(s): 0  Gene Names: Vcp EC: 3.6.4.6
Find proteins for Q01853 (Mus musculus) Explore Q01853  Go to UniProtKB:  Q01853

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ADP	A	ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 0.283 
• R-Value Work: 0.224 
• R-Value Observed: 0.224 
• Space Group: P 6 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 146	α = 90
b = 146	β = 90
c = 84.7	γ = 120

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SHARP	phasing
SOLVE	phasing
CNS	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2000-06-05 
• Released Date: 2001-05-31 
Deposition Author(s): Zhang, X., Shaw, A., Bates, P.A., Gorman, M.A., Kondo, H., Dokurno, P., Leonard M, G., Sternberg, J.E., Freemont, P.S.

Revision History 

• Version 1.0: 2001-05-31
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2019-05-22
  Changes: Advisory, Data collection, Other, Refinement description
• Version 1.4: 2019-07-24
  Changes: Data collection