3OPQ | pdb_00003opq

Phosphoribosylaminoimidazole carboxylase with fructose-6-phosphate bound to the central channel of the octameric protein structure.

• PDB DOI: https://doi.org/10.2210/pdb3OPQ/pdb

• Classification: LYASE
• Organism(s): Francisella tularensis subsp. tularensis
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2010-09-01 Released: 2010-11-17 
• Deposition Author(s): Filippova, E.V., Wawrzak, Z., Kudritska, M., Edwards, A., Savchenko, A., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.236 (Depositor), 0.242 (DCC) 
• R-Value Work: 
  0.188 (Depositor), 0.196 (DCC) 
• R-Value Observed: 
  0.191 (Depositor) 

Literature

Phosphoribosylaminoimidazole carboxylase with fructose-6-phosphate bound to the central channel of the octameric protein structure.

Filippova, E.V., Wawrzak, Z., Kudritska, M., Edwards, A., Savchenko, A., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D4  (Explore in 3D)
Global Stoichiometry: Homo 8-mer - A8 

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

Macromolecule Content 

• Total Structure Weight: 142.67 kDa 
• Atom Count: 10,071 
• Modeled Residue Count: 1,282 
• Deposited Residue Count: 1,304 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Phosphoribosylaminoimidazole carboxylase,catalytic subunit	A, B, C, D, E, F, G, H	163	Francisella tularensis subsp. tularensis	Mutation(s): 0  Gene Names: FTT_0896, purE EC: 4.1.1.21 (PDB Primary Data), 5.4.99.18 (UniProt)
UniProt
Find proteins for Q5NGE9 (Francisella tularensis subsp. tularensis (strain SCHU S4 / Schu 4)) Explore Q5NGE9  Go to UniProtKB:  Q5NGE9

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
F6R	IA [auth G], U [auth D]	FRUCTOSE -6-PHOSPHATE C6 H13 O9 P GSXOAOHZAIYLCY-HSUXUTPPSA-N
PO4	CA [auth F], FA [auth G], I [auth A], J [auth A], JA [auth H], KA [auth H], M [auth B], N [auth B], R [auth C], V [auth D], Z [auth E]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K
FMT	AA [auth E], BA [auth E], DA [auth F], EA [auth F], GA [auth G], HA [auth G], K [auth A], LA [auth H], O [auth B], P [auth B], Q [auth B], S [auth C], T [auth C], W [auth D], X [auth D], Y [auth D]	FORMIC ACID C H2 O2 BDAGIHXWWSANSR-UHFFFAOYSA-N
CL	L [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B, C, D, E, F, G, H	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.236 (Depositor), 0.242 (DCC) 
• R-Value Work:  0.188 (Depositor), 0.196 (DCC) 
• R-Value Observed: 0.191 (Depositor) 

Diffraction Data: https://doi.org/10.18430/m33opq

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 88.59	α = 90
b = 96.67	β = 90
c = 128.48	γ = 90

Software Package:

Software Name	Purpose
Blu-Ice	data collection
CCP4	model building
MrBUMP	phasing
PHENIX	model building
REFMAC	refinement
XSCALE	data scaling
CCP4	phasing
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-11-17 
Deposition Author(s): Filippova, E.V., Wawrzak, Z., Kudritska, M., Edwards, A., Savchenko, A., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

Revision History  

• Version 1.0: 2010-11-17
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-11-08
  Changes: Refinement description
• Version 1.3: 2024-11-27
  Changes: Data collection, Database references, Derived calculations, Structure summary