Native Crystal Structure of N10-Formyltetrahydrofolate Synthetase

Experimental Data Snapshot

  • Resolution: 2.10 Å
  • R-Value Free: 0.274 
  • R-Value Work: 0.234 
  • R-Value Observed: 0.236 

Starting Model: experimental
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This is version 1.3 of the entry. See complete history


Mechanism of N10-formyltetrahydrofolate synthetase derived from complexes with intermediates and inhibitors.

Celeste, L.R.Chai, G.Bielak, M.Minor, W.Lovelace, L.L.Lebioda, L.

(2012) Protein Sci 21: 219-228

  • DOI: https://doi.org/10.1002/pro.2005
  • Primary Citation of Related Structures:  
    4JIM, 4JJK, 4JJZ, 4JKI

  • PubMed Abstract: 

    N(10) -formyltetrahydrofolate synthetase (FTHFS) is a folate enzyme that catalyzes the formylation of tetrahydrofolate (THF) in an ATP dependent manner. Structures of FTHFS from the thermophilic homoacetogen, Moorella thermoacetica, complexed with (1) a catalytic intermediate-formylphosphate (XPO) and product-ADP; (2) with an inhibitory substrate analog-folate; (3) with XPO and an inhibitory THF analog, ZD9331, were used to analyze the enzyme mechanism. Nucleophilic attack of the formate ion on the gamma phosphate of ATP leads to the formation of XPO and the first product ADP. A channel that leads to the putative formate binding pocket allows for the binding of ATP and formate in random order. Formate binding is due to interactions with the gamma-phosphate moiety of ATP and additionally to two hydrogen bonds from the backbone nitrogen of Ala276 and the side chain of Arg97. Upon ADP dissociation, XPO reorients and moves to the position previously occupied by the beta-phosphate of ATP. Conformational changes that occur due to the XPO presence apparently allow for the recruitment of the third substrate, THF, with its pterin moiety positioned between Phe384 and Trp412. This position overlaps with that of the bound nucleoside, which is consistent with a catalytic mechanism hypothesis that FTHFS works via a sequential ping-pong mechanism. More specifically, a random bi uni uni bi ping-pong ter ter mechanism is proposed. Additionally, the native structure originally reported at a 2.5 Å resolution was redetermined at a 2.2 Å resolution.

  • Organizational Affiliation

    Department of Chemistry and Biochemistry, University of South Carolina, 631 Sumter St., Columbia, SC 29208, USA.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Formate--tetrahydrofolate ligase
A, B
559Moorella thermoacetica ATCC 39073Mutation(s): 0 
Gene Names: fhsmoorellaMoth_0109
Find proteins for Q2RM91 (Moorella thermoacetica (strain ATCC 39073 / JCM 9320))
Explore Q2RM91 
Go to UniProtKB:  Q2RM91
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2RM91
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on TOE

Download Ideal Coordinates CCD File 
C [auth A],
D [auth A],
J [auth B]
C7 H16 O4
Query on SO4

Download Ideal Coordinates CCD File 
E [auth A]
F [auth A]
G [auth A]
H [auth A]
I [auth A]
E [auth A],
F [auth A],
G [auth A],
H [auth A],
I [auth A],
K [auth B],
L [auth B],
M [auth B]
O4 S
Experimental Data & Validation

Experimental Data

  • Resolution: 2.10 Å
  • R-Value Free: 0.274 
  • R-Value Work: 0.234 
  • R-Value Observed: 0.236 
  • Space Group: H 3 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 161.192α = 90
b = 161.192β = 90
c = 256.903γ = 120
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
PDB_EXTRACTdata extraction
HKL-2000data collection
HKL-3000data reduction
HKL-3000data scaling

Structure Validation

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Ligand Structure Quality Assessment 

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2013-03-20
    Type: Initial release
  • Version 1.1: 2017-11-15
    Changes: Advisory, Refinement description
  • Version 1.2: 2020-09-09
    Changes: Derived calculations, Structure summary
  • Version 1.3: 2023-09-20
    Changes: Advisory, Data collection, Database references, Refinement description