3K2Q | pdb_00003k2q

Crystal structure of Pyrophosphate-dependent phosphofructokinase from Marinobacter aquaeolei, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET MqR88

• PDB DOI: https://doi.org/10.2210/pdb3K2Q/pdb

• Classification: TRANSFERASE
• Organism(s): Marinobacter nauticus VT8
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2009-09-30 Released: 2009-11-17 
• Deposition Author(s): Seetharaman, J., Lew, S., Wang, D., Neely, H., Janjua, K., Cunningham, K., Owens, L., Xiao, R., Liu, J., Baran, M.C., Acton, T.B., Rost, B., Montelione, G.T., Hunt, J.F., Tong, L., Northeast Structural Genomics Consortium (NESG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 
  0.260 (Depositor), 0.270 (DCC) 
• R-Value Work: 
  0.234 (Depositor), 0.249 (DCC) 
• R-Value Observed: 
  0.234 (Depositor) 

Literature

Crystal structure of Pyrophosphate-dependent phosphofructokinase from Marinobacter aquaeolei, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET MqR88

Seetharaman, J., Lew, S., Wang, D., Neely, H., Janjua, K., Cunningham, K., Owens, L., Xiao, R., Liu, J., Baran, M.C., Acton, T.B., Rost, B., Montelione, G.T., Hunt, J.F., Tong, L.

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)

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 137.51 kDa 
• Atom Count: 9,397 
• Modeled Residue Count: 1,176 
• Deposited Residue Count: 1,260 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Pyrophosphate-dependent phosphofructokinase	A, B, C	420	Marinobacter nauticus VT8	Mutation(s): 0  Gene Names: Maqu_2402 EC: 2.7.1.90
UniProt
Find proteins for A1U3A9 (Marinobacter nauticus (strain ATCC 700491 / DSM 11845 / VT8)) Explore A1U3A9  Go to UniProtKB:  A1U3A9

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NA	D [auth A], E [auth B], F [auth C]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free:  0.260 (Depositor), 0.270 (DCC) 
• R-Value Work:  0.234 (Depositor), 0.249 (DCC) 
• R-Value Observed: 0.234 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 151.526	α = 90
b = 100.752	β = 110.34
c = 101.584	γ = 90

Software Package:

Software Name	Purpose
ADSC	data collection
SHELXS	phasing
CNS	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-11-17 
Deposition Author(s): Seetharaman, J., Lew, S., Wang, D., Neely, H., Janjua, K., Cunningham, K., Owens, L., Xiao, R., Liu, J., Baran, M.C., Acton, T.B., Rost, B., Montelione, G.T., Hunt, J.F., Tong, L., Northeast Structural Genomics Consortium (NESG)

Revision History  

• Version 1.0: 2009-11-17
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2024-02-21
  Changes: Data collection, Database references, Derived calculations