Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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

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

Macromolecule Content

• Total Structure Weight: 30036.54 
• Atom Count: 2071 
• Residue Count: 260 
• Unique protein chains: 1

3NI5

Carbonic anhydrase inhibitor: C1 family

• DOI: 10.2210/pdb3NI5/pdb

• Classification: Lyase/Lyase INHIBITOR
• Organism(s): Homo sapiens


• Deposited: 2010-06-15 Released: 2011-06-22 
• Deposition Author(s): Temperini, C., Cecchi, A., Scozzafava, A., Supuran, C.T.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.1 Å
• R-Value Free: 0.272 
• R-Value Work: 0.229 

Literature

Synthesis and crystallographic analysis of new sulfonamides incorporating NO-donating moieties with potent antiglaucoma action

Mincione, F., Benedini, F., Biondi, S., Cecchi, A., Temperini, C., Formicola, G., Pacileo, I., Scozzafava, A., Masini, E., Supuran, C.T.

(2011) Bioorg.Med.Chem.Lett. 21: 3216-3221

• PubMed: 21549597 
• DOI: 10.1016/j.bmcl.2011.04.046


• PubMed Abstract: 
  

Several aromatic/heterocyclic sulfonamide scaffolds have been used to synthesize compounds incorporating NO-donating moieties of the nitrate ester type, which have been investigated for the inhibition of five physiologically relevant human carbonic anhydrase (hCA, EC 4.2.1.1) isoforms: hCA I (offtarget), II, IV and XII (antiglaucoma targets) and IX (antitumor target). Some of the new compounds showed effective in vitro inhibition of the target isoforms involved in glaucoma, and the X-ray crystal structure of one of them revealed factors associated with the marked inhibitory activity. In an animal model of ocular hypertension, one of the new compounds was twice more effective than dorzolamide in reducing elevated intraocular pressure characteristic of this disease, anticipating their potential for the treatment of glaucoma.

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Organizational Affiliation: 

U.O. Oculistica Az. USL 3, Val di Nievole, Ospedale di Pescia, Pescia, Italy.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Carbonic anhydrase 2	A	260	Homo sapiens	Mutation(s): 0  Gene Names: CA2 EC: 4.2.1.1
Find proteins for P00918 (Homo sapiens) Go to Gene View: CA2 Go to UniProtKB:  P00918

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
ZN	A	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
C1H	A	4-(nitrooxy)butyl 3-[(5-sulfamoyl-1,3,4-thiadiazol-2-yl)sulfamoyl]benzoate C13 H15 N5 O9 S3 QCXYDHYYUCXOLH-UHFFFAOYSA-N
HG	A	MERCURY (II) ION Hg BQPIGGFYSBELGY-UHFFFAOYSA-N

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
C1H	Ki: 28 nM (100) BINDINGDB
C1H	Ki: 28 nM BINDINGMOAD
C1H	Ki: 28 nM PDBBIND

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.1 Å
• R-Value Free: 0.272 
• R-Value Work: 0.229 
• Space Group: P 1 2₁ 1

Unit Cell:

Length (Å)	Angle (°)
a = 41.790	α = 90.00
b = 42.110	β = 104.40
c = 72.020	γ = 90.00

Software Package:

Software Name	Purpose
REFMAC	refinement
SCALEPACK	data scaling
AMoRE	phasing
CrysalisPro	data collection
CrysalisPro	data reduction

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2010-06-15 
• Released Date: 2011-06-22 
• Deposition Author(s): Temperini, C., Cecchi, A., Scozzafava, A., Supuran, C.T.

Revision History 

• Version 1.0: 2011-06-22
  Type: Initial release
• Version 1.1: 2011-07-13
  Type: Version format compliance
• Version 1.2: 2017-11-08
  Type: Refinement description