5FCT

Mouse thymidylate synthase in ternary complex with FdUMP and methylenetetrahydrofolate.

• PDB DOI: https://doi.org/10.2210/pdb5FCT/pdb

• Classification: TRANSFERASE
• Organism(s): Mus musculus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2015-12-15 Released: 2016-10-26 
• Deposition Author(s): Dowiercial, A., Wilk, P., Jarmula, A., Rode, W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free: 
  0.166 (Depositor), 0.170 (DCC) 
• R-Value Work: 
  0.117 (Depositor), 0.120 (DCC) 
• R-Value Observed: 
  0.120 (Depositor) 

Starting Model: experimental

Literature

Mouse thymidylate synthase does not show the inactive conformation, observed for the human enzyme

Dowiercial, A., Jarmula, A., Wilk, P., Rypniewski, W., Kowalska, M., Fraczyk, T., Ciesla, J., Rode, W.

(2016) Struct Chem 

• DOI: https://doi.org/10.1007/s11224-016-0840-8

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: 71.57 kDa 
• Atom Count: 5,711 
• Modelled Residue Count: 574 
• Deposited Residue Count: 614 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Thymidylate synthase	A, B	307	Mus musculus	Mutation(s): 0  Gene Names: Tyms, mCG_11630 EC: 2.1.1.45
UniProt
Find proteins for P07607 (Mus musculus) Explore P07607  Go to UniProtKB:  P07607

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
C2F	D [auth A], F [auth B]	5-METHYL-5,6,7,8-TETRAHYDROFOLIC ACID C20 H25 N7 O6 ZNOVTXRBGFNYRX-STQMWFEESA-N
UFP	C [auth A], E [auth B]	5-FLUORO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE C9 H12 F N2 O8 P HFEKDTCAMMOLQP-RRKCRQDMSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
UFP	BindingDB:  5FCT	Ki: min: 10, max: 30 (nM) from 4 assay(s)
		IC50: min: 8, max: 1.00e+4 (nM) from 4 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free:  0.166 (Depositor), 0.170 (DCC) 
• R-Value Work:  0.117 (Depositor), 0.120 (DCC) 
• R-Value Observed: 0.120 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 54.224	α = 90
b = 83.302	β = 105.43
c = 68.85	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
CrysalisPro	data reduction
CrysalisPro	data scaling
CrysalisPro	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2016-10-26 
Deposition Author(s): Dowiercial, A., Wilk, P., Jarmula, A., Rode, W.

Revision History  

• Version 1.0: 2016-10-26
  Type: Initial release
  
• Version 1.1: 2017-09-13
  Changes: Data collection
• Version 1.2: 2018-04-04
  Changes: Data collection
• Version 1.3: 2024-01-10
  Changes: Data collection, Database references, Refinement description
• Version 1.4: 2024-11-06
  Changes: Structure summary