7BFA | pdb_00007bfa

4-(2-(3-(4-iodophenyl)thioureido)ethyl)benzenesulfonamide in complex with Carbonic Anhydrase II

• PDB DOI: https://doi.org/10.2210/pdb7BFA/pdb

• Classification: LYASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2021-01-02 Released: 2022-01-12 
• Deposition Author(s): Angeli, A., Ferraroni, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 
  0.182 (Depositor), 0.193 (DCC) 
• R-Value Work: 
  0.146 (Depositor), 0.160 (DCC) 

Starting Model: experimental

Literature

Structural Insights into Schistosoma mansoni Carbonic Anhydrase (SmCA) Inhibition by Selenoureido-Substituted Benzenesulfonamides.

Angeli, A., Ferraroni, M., Da'dara, A.A., Selleri, S., Pinteala, M., Carta, F., Skelly, P.J., Supuran, C.T.

(2021) J Med Chem 64: 10418-10428

• PubMed: 34232641 
• DOI: https://doi.org/10.1021/acs.jmedchem.1c00840
• Primary Citation Related Structures: 
  6QQM, 7BFA, 7BG5, 7BHH, 7BM4, 7NEX, 7NG1, 7NWY, 7O2S, 7O48, 7OA1


• PubMed Abstract: 
  

  Tegumental carbonic anhydrase from the worm Schistosoma mansoni (SmCA) is considered a new anti-parasitic target because suppressing its expression interferes with schistosome metabolism and virulence. Here, we present the inhibition profiles of selenoureido compounds on recombinant SmCA and resolution of the first X-ray crystal structures of SmCA in adduct with a selection of such inhibitors. The key molecular features of such compounds in adduct with SmCA were obtained and compared to the human isoform hCA II, in order to understand the main structural factors responsible for enzymatic affinity and selectivity. Compounds that more specifically inhibited the schistosome versus human enzymes were identified. The results expand current knowledge in the field and pave the way for the development of more potent antiparasitic agents in the near future.

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Organizational Affiliation: 
• NEUROFARBA Department, Sezione di Scienze Farmaceutiche, University of Florence, Via Ugo Schiff 6, Sesto Fiorentino, 50019 Florence, Italy.
Centre of Advanced Research in Bionanoconjugates and Biopolymers Department, "Petru Poni" Institute of Macromolecular Chemistry, 707410 Iasi, Romania.
Dipartimento di Chimica "Ugo Schiff", University of Florence, Via della Lastruccia 3, Sesto Fiorentino, 50019 Florence, Italy.
Department of Infectious Disease and Global Health, Cummings School of Veterinary Medicine, Tufts University, North Grafton, Massachusetts 01536, United States.

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 29.91 kDa 
• Atom Count: 2,332 
• Modeled Residue Count: 258 
• Deposited Residue Count: 260 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Carbonic anhydrase 2	A [auth AAA]	260	Homo sapiens	Mutation(s): 0  Gene Names: CA2 EC: 4.2.1.1 (PDB Primary Data), 4.2.1.69 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for P00918 (Homo sapiens) Explore P00918  Go to UniProtKB:  P00918
PHAROS:  P00918 GTEx:  ENSG00000104267

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
TKE (Subject of Investigation/LOI)	C [auth AAA]	1-(4-iodophenyl)-3-[2-(4-sulfamoylphenyl)ethyl]thiourea C15 H16 I N3 O2 S2 JUSYUNJKOKPYPO-UHFFFAOYSA-N
GOL	D [auth AAA]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
ZN	B [auth AAA]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free:  0.182 (Depositor), 0.193 (DCC) 
• R-Value Work:  0.146 (Depositor), 0.160 (DCC) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 42.45	α = 90
b = 41.6	β = 104.5
c = 72.25	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2022-01-12 
Deposition Author(s): Angeli, A., Ferraroni, M.

Revision History  

• Version 1.0: 2022-01-12
  Type: Initial release
  
• Version 1.1: 2022-05-04
  Changes: Database references
• Version 1.2: 2024-01-31
  Changes: Data collection, Derived calculations, Refinement description