5EQT | pdb_00005eqt

crystal structure of the ATPase domain of PAN from Pyrococcus horikoshii

• PDB DOI: https://doi.org/10.2210/pdb5EQT/pdb

• Classification: HYDROLASE
• Organism(s): Pyrococcus horikoshii
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2015-11-13 Released: 2016-11-23 
• Deposition Author(s): Colombo, M.
• Funding Organization(s): Centre Nationale de la Recherche Scientifique

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.94 Å
• R-Value Free: 
  0.239 (Depositor), 0.248 (DCC) 
• R-Value Work: 
  0.223 (Depositor), 0.234 (DCC) 
• R-Value Observed: 
  0.224 (Depositor) 

Starting Model: experimental

Literature

crystal structure of the ATPase domain of PAN from Pyrococcus horikoshii

Colombo, M., Ibrahim, Z., Flament, D., Hartlein, M., Teixeira, S., Girard, E., Gabel, F., Franzetti, B.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 29.24 kDa 
• Atom Count: 2,006 
• Modeled Residue Count: 249 
• Deposited Residue Count: 257 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Proteasome-activating nucleotidase	A	257	Pyrococcus horikoshii	Mutation(s): 0  Gene Names: pan, PH0201 EC: 3.6.1
UniProt
Find proteins for O57940 (Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)) Explore O57940  Go to UniProtKB:  O57940

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ADP	B [auth A]	ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N
SO4	D [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
ACT	C [auth A]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.94 Å
• R-Value Free:  0.239 (Depositor), 0.248 (DCC) 
• R-Value Work:  0.223 (Depositor), 0.234 (DCC) 
• R-Value Observed: 0.224 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 114.344	α = 90
b = 46.488	β = 115.18
c = 56.428	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
SCALA	data scaling
PHASER	phasing
PDB_EXTRACT	data extraction
XDS	data reduction

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2016-11-23 
Deposition Author(s): Colombo, M.

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Funding Organization	Location	Grant Number
Centre Nationale de la Recherche Scientifique	France	ANR-12-BSV8-0019-0

Revision History  

• Version 1.0: 2016-11-23
  Type: Initial release
  
• Version 1.1: 2019-02-20
  Changes: Advisory, Data collection, Derived calculations
• Version 1.2: 2024-01-10
  Changes: Data collection, Database references, Refinement description
• Version 1.3: 2025-10-01
  Changes: Advisory, Derived calculations, Structure summary