2ZW2 | pdb_00002zw2

Crystal Structure of Formylglycinamide Ribonucleotide Amidotransferase III from SULFOLOBUS TOKODAII (STPURS)

• PDB DOI: https://doi.org/10.2210/pdb2ZW2/pdb

• Classification: LIGASE
• Organism(s): Sulfurisphaera tokodaii
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2008-11-27 Released: 2009-11-17 
• Deposition Author(s): Suzuki, S., Tamura, S., Okada, K., Baba, S., Kumasaka, T., Nakagawa, N., Masui, R., Kuramitsu, S., Sampei, G., Kawai, G.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free: 
  0.242 (Depositor), 0.223 (DCC) 
• R-Value Work: 
  0.212 (Depositor), 0.217 (DCC) 
• R-Value Observed: 
  0.212 (Depositor) 

Starting Model: experimental

Literature

Crystal Structure of Formylglycinamide Ribonucleotide Amidotransferase III from SULFOLOBUS TOKODAII (STPURS)

Suzuki, S., Tamura, S., Okada, K., Baba, S., Kumasaka, T., Nakagawa, N., Masui, R., Kuramitsu, S., Sampei, G., Kawai, G.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content 

• Total Structure Weight: 21.71 kDa 
• Atom Count: 1,616 
• Modeled Residue Count: 170 
• Deposited Residue Count: 184 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative uncharacterized protein STS178	A, B	92	Sulfurisphaera tokodaii	Mutation(s): 0  Gene Names: purS EC: 6.3.5.3
UniProt
Find proteins for F9VNF4 (Sulfurisphaera tokodaii (strain DSM 16993 / JCM 10545 / NBRC 100140 / 7)) Explore F9VNF4  Go to UniProtKB:  F9VNF4

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	C [auth A], D [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free:  0.242 (Depositor), 0.223 (DCC) 
• R-Value Work:  0.212 (Depositor), 0.217 (DCC) 
• R-Value Observed: 0.212 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 35.821	α = 90
b = 68.39	β = 90
c = 68.403	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
BSS	data collection
HKL-2000	data reduction
HKL-2000	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-11-17 
Deposition Author(s): Suzuki, S., Tamura, S., Okada, K., Baba, S., Kumasaka, T., Nakagawa, N., Masui, R., Kuramitsu, S., Sampei, G., Kawai, G.

Revision History  

• Version 1.0: 2009-11-17
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Non-polymer description, Version format compliance
• Version 1.2: 2023-11-01
  Changes: Data collection, Database references, Derived calculations, Refinement description