4HT2

Crystal structure of human carbonic anhydrase isozyme XII with the inhibitor.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.45 Å
  • R-Value Free: 0.188 
  • R-Value Work: 0.150 
  • R-Value Observed: 0.154 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

4-Substituted-2,3,5,6-tetrafluorobenzenesulfonamides as inhibitors of carbonic anhydrases I, II, VII, XII, and XIII.

Dudutiene, V.Zubriene, A.Smirnov, A.Gylyte, J.Timm, D.Manakova, E.Grazulis, S.Matulis, D.

(2013) Bioorg Med Chem 21: 2093-2106

  • DOI: 10.1016/j.bmc.2013.01.008
  • Primary Citation of Related Structures:  
    4HT0, 4HT2, 4HU1

  • PubMed Abstract: 
  • A series of 4-substituted-2,3,5,6-tetrafluorobenezenesulfonamides were synthesized and their binding potencies as inhibitors of recombinant human carbonic anhydrase isozymes I, II, VII, XII, and XIII were determined by the thermal shift assay, isothermal titration calorimetry, and stop-flow CO2 hydration assay ...

    A series of 4-substituted-2,3,5,6-tetrafluorobenezenesulfonamides were synthesized and their binding potencies as inhibitors of recombinant human carbonic anhydrase isozymes I, II, VII, XII, and XIII were determined by the thermal shift assay, isothermal titration calorimetry, and stop-flow CO2 hydration assay. All fluorinated benzenesulfonamides exhibited nanomolar binding potency toward tested CAs and fluorinated benzenesulfonamides posessed higher binding potency than non-fluorinated compounds. The crystal structures of 4-[(4,6-dimethylpyrimidin-2-yl)thio]-2,3,5,6-tetrafluorobenzenesulfonamide in complex with CA II and CA XII, and 2,3,5,6-tetrafluoro-4-[(2-hydroxyethyl)sulfonyl]benzenesulfonamide in complex with CA XIII were determined. The observed dissociation constants for several fluorinated compounds reached subnanomolar range for CA I isozyme. The affinity and the selectivity of the compounds towards tested isozymes are presented.


    Organizational Affiliation

    Department of Biothermodynamics and Drug Design,Vilnius University Institute of Biotechnology, Graičiūno 8, Vilnius LT-02241, Lithuania.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Carbonic anhydrase 12A, B, C, D263Homo sapiensMutation(s): 0 
Gene Names: CA12
EC: 4.2.1.1
Find proteins for O43570 (Homo sapiens)
Explore O43570 
Go to UniProtKB:  O43570
NIH Common Fund Data Resources
PHAROS:  O43570
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
V50
Query on V50

Download Ideal Coordinates CCD File 
F [auth A], L [auth B], T [auth C], W [auth D]4-[(4,6-dimethylpyrimidin-2-yl)thio]-2,3,5,6-tetrafluorobenzenesulfonamide
C12 H9 F4 N3 O2 S2
PKQIZTGHFBCYEN-UHFFFAOYSA-N
 Ligand Interaction
PEG
Query on PEG

Download Ideal Coordinates CCD File 
G [auth A], M [auth B], X [auth D]DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
 Ligand Interaction
ZN
Query on ZN

Download Ideal Coordinates CCD File 
E [auth A], K [auth B], S [auth C], V [auth D]ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
EDO
Query on EDO

Download Ideal Coordinates CCD File 
AA [auth D] , H [auth A] , I [auth A] , J [auth A] , N [auth B] , O [auth B] , P [auth B] , Q [auth B] , 
AA [auth D],  H [auth A],  I [auth A],  J [auth A],  N [auth B],  O [auth B],  P [auth B],  Q [auth B],  R [auth B],  U [auth C],  Y [auth D],  Z [auth D]
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
V50Kd:  150   nM  BindingDB
V50Kd :  290   nM  PDBBind
V50Kd:  290   nM  Binding MOAD
V50Kd:  290   nM  BindingDB
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.45 Å
  • R-Value Free: 0.188 
  • R-Value Work: 0.150 
  • R-Value Observed: 0.154 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 46.709α = 81.78
b = 67.261β = 84.01
c = 80.689γ = 86.48
Software Package:
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
PDB_EXTRACTdata extraction
DNAdata collection
MOLREPphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2013-04-10
    Type: Initial release