2D7J | pdb_00002d7j

Crystal Structure Analysis of Glutamine Amidotransferase from Pyrococcus horikoshii OT3

• PDB DOI: https://doi.org/10.2210/pdb2D7J/pdb

• Classification: LIGASE
• Organism(s): Pyrococcus horikoshii OT3
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2005-11-21 Released: 2006-11-21 
• Deposition Author(s): Maruoka, S., Lee, W.C., Kamo, M., Kudo, N., Nagata, K., Tanokura, M.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.89 Å
• R-Value Free: 
  0.213 (Depositor), 0.195 (DCC) 
• R-Value Work: 
  0.184 (Depositor), 0.192 (DCC) 
• R-Value Observed: 
  0.186 (Depositor) 

Literature

Crystal structure of glutamine amidotransferase from Pyrococcus horikoshii OT3

Maruoka, S., Lee, W.C., Kamo, M., Kudo, N., Nagata, K., Tanokura, M.

(2005) Proc Jpn Acad Ser B Phys Biol Sci 81: 459-462

• DOI: https://doi.org/10.2183/pjab.81.459

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 23.72 kDa 
• Atom Count: 1,550 
• Modeled Residue Count: 188 
• Deposited Residue Count: 209 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GMP synthase [glutamine-hydrolyzing] subunit A	A	209	Pyrococcus horikoshii OT3	Mutation(s): 0  EC: 6.3.5.2
UniProt
Find proteins for O59071 (Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)) Explore O59071  Go to UniProtKB:  O59071

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.89 Å
• R-Value Free:  0.213 (Depositor), 0.195 (DCC) 
• R-Value Work:  0.184 (Depositor), 0.192 (DCC) 
• R-Value Observed: 0.186 (Depositor) 

Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.941	α = 90
b = 64.941	β = 90
c = 116.408	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
SCALEPACK	data scaling
SOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-11-21 
Deposition Author(s): Maruoka, S., Lee, W.C., Kamo, M., Kudo, N., Nagata, K., Tanokura, M.

Revision History  

• Version 1.0: 2006-11-21
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Advisory, Source and taxonomy, Version format compliance
• Version 1.3: 2024-03-13
  Changes: Data collection, Database references