2RP3 | pdb_00002rp3

Solution Structure of Cyanovirin-N Domain B Mutant

• PDB DOI: https://doi.org/10.2210/pdb2RP3/pdb

• Classification: ANTIVIRAL PROTEIN
• Organism(s): Nostoc ellipsosporum
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2008-04-30 Released: 2008-08-19 
• Deposition Author(s): Matei, E., Furey, W., Gronenborn, A.M.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 50 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Literature

Solution and crystal structures of a sugar binding site mutant of cyanovirin-N: no evidence of domain swapping

Matei, E., Furey, W., Gronenborn, A.M.

(2008) Structure 16: 1183-1194

• PubMed: 18682220 
• DOI: https://doi.org/10.1016/j.str.2008.05.011
• Primary Citation Related Structures: 
  2RP3, 3CZZ


• PubMed Abstract: 
  

  The cyanobacterial lectin Cyanovirin-N (CV-N) exhibits antiviral activity against HIV at a low nanomolar concentration by interacting with high-mannose oligosaccharides on the virus surface envelope glycoprotein gp120. Atomic structures of wild-type CV-N revealed a monomer in solution and a domain-swapped dimer in the crystal, with the monomer comprising two independent carbohydrate binding sites that individually bind with micromolar affinity to di- and trimannoses. In the mutant CVN(mutDB), the binding site on domain B was abolished and the protein was found to be completely inactive against HIV. We determined the solution NMR and crystal structures of this variant and characterized its sugar binding properties. In solution and the crystal, CVN(mutDB) is a monomer and no domain-swapping was observed. The protein binds to Man-3 and Man-9 with similar dissociation constants ( approximately 4 muM). This confirms that the nanomolar activity of wild-type CV-N is related to the multisite nature of the protein carbohydrate interaction.

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Organizational Affiliation: 
• Department of Structural Biology, University of Pittsburgh School of Medicine, Pittsburgh, PA 15260, USA.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 10.69 kDa 
• Atom Count: 748 
• Modeled Residue Count: 101 
• Deposited Residue Count: 101 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cyanovirin-N	A	101	Nostoc ellipsosporum	Mutation(s): 6
UniProt
Find proteins for P81180 (Nostoc ellipsosporum) Explore P81180  Go to UniProtKB:  P81180

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 50 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-08-19 
Deposition Author(s): Matei, E., Furey, W., Gronenborn, A.M.

Revision History  

• Version 1.0: 2008-08-19
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2021-11-10
  Changes: Data collection, Database references, Derived calculations
• Version 1.3: 2024-10-30
  Changes: Data collection, Structure summary