6WEP | pdb_00006wep

Crystal structure of TS-DHFR from Cryptosporidium hominis with Apo-TS site

• PDB DOI: https://doi.org/10.2210/pdb6WEP/pdb

• Classification: TRANSFERASE
• Organism(s): Cryptosporidium hominis
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2020-04-02 Released: 2020-06-17 
• Deposition Author(s): Czyzyk, D.J., Ruiz, V.G., Kumar, V.P., Jorgensen, W.L., Anderson, K.S.
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.79 Å
• R-Value Free: 
  0.285 (Depositor), 0.280 (DCC) 
• R-Value Work: 
  0.239 (Depositor), 0.240 (DCC) 
• R-Value Observed: 
  0.242 (Depositor) 

Starting Model: experimental

Literature

Targeting the TS dimer interface in bifunctional Cryptosporidium hominis TS-DHFR from parasitic protozoa: Virtual screening identifies novel TS allosteric inhibitor

Ruiz, V.G., Czyzyk, D.J., Kumar, V.P., Jorgensen, W.L., Anderson, K.S.

(2020) Bioorg Med Chem Lett 30: 127292-127298

• DOI: https://doi.org/10.1016/j.bmcl.2020.127292

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 Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 122.92 kDa 
• Atom Count: 8,009 
• Modelled Residue Count: 1,006 
• Deposited Residue Count: 1,042 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Bifunctional dihydrofolate reductase-thymidylate synthase	A, B	521	Cryptosporidium hominis	Mutation(s): 0  Gene Names: CHUDEA4_4460
UniProt
Find proteins for A0A0S4TER9 (Cryptosporidium hominis) Explore A0A0S4TER9  Go to UniProtKB:  A0A0S4TER9

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NDP	C [auth A], E [auth B]	NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE C21 H30 N7 O17 P3 ACFIXJIJDZMPPO-NNYOXOHSSA-N
MTX	D [auth A], F [auth B]	METHOTREXATE C20 H22 N8 O5 FBOZXECLQNJBKD-ZDUSSCGKSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.79 Å
• R-Value Free:  0.285 (Depositor), 0.280 (DCC) 
• R-Value Work:  0.239 (Depositor), 0.240 (DCC) 
• R-Value Observed: 0.242 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 76.822	α = 90
b = 118.114	β = 90
c = 153.048	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2020-06-17 
Deposition Author(s): Czyzyk, D.J., Ruiz, V.G., Kumar, V.P., Jorgensen, W.L., Anderson, K.S.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	AI083146

Revision History  

• Version 1.0: 2020-06-17
  Type: Initial release
  
• Version 1.1: 2023-10-18
  Changes: Data collection, Database references, Refinement description