4FEK | pdb_00004fek

Crystal Structure of putative diflavin flavoprotein A 5 (fragment 1-254) from Nostoc sp. PCC 7120, Northeast Structural Genomics Consortium Target NsR435A , Northeast Structural Genomics Consortium (NESG) Target NsR435A

• PDB DOI: https://doi.org/10.2210/pdb4FEK/pdb
• Entry: 4FEK supersedes: 3HNN

• Classification: OXIDOREDUCTASE
• Organism(s): Nostoc sp. PCC 7120 = FACHB-418
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2012-05-30 Released: 2012-07-11 
• Deposition Author(s): Kuzin, A., Abashidze, M., Seetharaman, J., Janjua, J., Xiao, R., Foote, E.L., Ciccosanti, C., Wang, H., Everett, J.K., Nair, R., 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: 2.00 Å
• R-Value Free: 
  0.240 (Depositor), 0.235 (DCC) 
• R-Value Work: 
  0.209 (Depositor), 0.206 (DCC) 
• R-Value Observed: 
  0.211 (Depositor) 

Starting Model: experimental

Literature

Northeast Structural Genomics Consortium Target NsR435A

Kuzin, A., Abashidze, M., Seetharaman, J., Janjua, J., Xiao, R., Foote, E.L., Ciccosanti, C., Wang, H., Everett, J.K., Nair, R., Acton, T.B., Rost, B., Montelione, G.T., Hunt, J.F., Tong, L.

To be published.

Biological Assembly 1  

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

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

Biological Assembly 2  

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

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

Macromolecule Content 

• Total Structure Weight: 60.37 kDa 
• Atom Count: 4,209 
• Modeled Residue Count: 500 
• Deposited Residue Count: 524 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative diflavin flavoprotein A 5	A, B	262	Nostoc sp. PCC 7120 = FACHB-418	Mutation(s): 0  Gene Names: dfa5, all0177 EC: 1
UniProt
Find proteins for Q8Z0C1 (Nostoc sp. (strain PCC 7120 / SAG 25.82 / UTEX 2576)) Explore Q8Z0C1  Go to UniProtKB:  Q8Z0C1

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PEG	C [auth A], F [auth B]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N
PO4	E [auth A], G [auth B]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K
CL	D [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B	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:  0.240 (Depositor), 0.235 (DCC) 
• R-Value Work:  0.209 (Depositor), 0.206 (DCC) 
• R-Value Observed: 0.211 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 50.651	α = 90
b = 57.993	β = 102.42
c = 106.606	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
ADSC	data collection
DENZO	data reduction
SCALEPACK	data scaling
BALBES	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-07-11 
Deposition Author(s): Kuzin, A., Abashidze, M., Seetharaman, J., Janjua, J., Xiao, R., Foote, E.L., Ciccosanti, C., Wang, H., Everett, J.K., Nair, R., Acton, T.B., Rost, B., Montelione, G.T., Hunt, J.F., Tong, L., Northeast Structural Genomics Consortium (NESG)
• This entry supersedes: 3HNN

Revision History  

• Version 1.0: 2012-07-11
  Type: Initial release
  
• Version 1.1: 2023-09-13
  Changes: Data collection, Database references, Derived calculations, Refinement description
• Version 1.2: 2023-12-06
  Changes: Data collection
• Version 1.3: 2024-11-20
  Changes: Structure summary