Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 29.72 kDa 
• Atom Count: 2256 
• Modelled Residue Count: 258 
• Deposited Residue Count: 260 
• Unique protein chains: 1

1EOU

CRYSTAL STRUCTURE OF HUMAN CARBONIC ANHYDRASE II COMPLEXED WITH AN ANTICONVULSANT SUGAR SULFAMATE

• PDB DOI: 10.2210/pdb1EOU/pdb

• Classification: LYASE
• Organism(s): Homo sapiens
• Mutation(s): No 


• Deposited: 2000-03-24 Released: 2002-02-13 
• Deposition Author(s): Recacha, R., Costanzo, M.J., Maryanoff, B.E., Chattopadhyay, D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.229 
• R-Value Work: 0.176 
• R-Value Observed: 0.176 

Literature

Crystal structure of human carbonic anhydrase II complexed with an anti-convulsant sugar sulphamate.

Recacha, R., Costanzo, M.J., Maryanoff, B.E., Chattopadhyay, D.

(2002) Biochem J 361: 437-441

• PubMed: 11802772 
• DOI: 10.1042/0264-6021:3610437
• Primary Citation of Related Structures:  
  1EOU


• PubMed Abstract: 
  

The fructose-based sugar sulphamate RWJ-37497, a potent analogue of the widely used anti-epileptic drug topiramate, possesses anti-convulsant and carbonic anhydrase-inhibitory activities. We have studied the binding interactions of RWJ-37497 in the active site of human carbonic anhydrase II by X-ray crystallography. The atomic positions of the enzyme inhibitor complex were refined at a resolution of 2.1 A (1 A=0.1 nm) to the final crystallographic R and R(free) values of 0.18 and 0.23, respectively. The inhibitor co-ordinates to the active-site zinc ion through its oxygen atom and the ionized nitrogen atom of the sulphamate group by replacing the metal-bound water molecules, although the sulphamoyl oxygen atom provides a rather lengthy co-ordination. The 4,5-cyclic sulphate group is positioned in a hydrophobic pocket of the active site, making contacts with the residues Phe-131, Leu-198, Pro-201 and Pro-202. Since the ligand was found to be intact, concerns about RWJ-37947 irreversibly alkylating the enzyme through its 4,5-cyclic sulphate group were dispelled.

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Related Citations: 

• Novel Binding Mode of Hydroxamate Inhibitors to Human Carbonic Anhydrase II
  Scolnick, L.R., Clements, A.M., Christianson, D.W.
  (1997) J Am Chem Soc 119: 850

• tructure-Activity Studies on Anticonvulsant Sugar Sulfamates Related to Topiramate. Enhanced Potency with Cyclic Sulfate Derivatives
  Maryanoff, B.E., Costanzo, M.J., Nortey, S.O., Greco, M.N., Shank, R.P.
  (1998) J Med Chem 41: 1315

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Organizational Affiliation: 

Center for Biophysical Sciences and Engineering, and School of Medicine, University of Alabama at Birmingham, Birmingham, AL 35294, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CARBONIC ANHYDRASE II (CA II)	A	260	Homo sapiens	Mutation(s): 0  Gene Names: CA2 EC: 4.2.1.1
UniProt & NIH Common Fund Data Resources
Find proteins for P00918 (Homo sapiens) Explore P00918  Go to UniProtKB:  P00918
PHAROS:  P00918

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SMS	C [auth A]	SULFAMIC ACID 2,3-O-(1-METHYLETHYLIDENE)-4,5-O-SULFONYL-BETA-FRUCTOPYRANOSE ESTER C9 H15 N O10 S2 GGOAQSGCBDRTHT-JAKMQLQISA-N
ZN	B [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
SMS	BindingDB:  1EOU	Ki: min: 12, max: 910 (nM) from 5 assay(s)
		Kd: 10 (nM) from 1 assay(s)
		IC50: 36 (nM) from 1 assay(s)
	Binding MOAD:  1EOU	IC50: 36 (nM) from 1 assay(s)
	PDBBind:  1EOU	IC50: 36 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.229 
• R-Value Work: 0.176 
• R-Value Observed: 0.176 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 42.275	α = 90
b = 41.39	β = 104.11
c = 72.509	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2000-03-24 
• Released Date: 2002-02-13 
Deposition Author(s): Recacha, R., Costanzo, M.J., Maryanoff, B.E., Chattopadhyay, D.

Revision History  

• Version 1.0: 2002-02-13
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2018-03-07
  Changes: Data collection