2RDK

Five site mutated Cyanovirin-N with Mannose dimer bound

• PDB DOI: https://doi.org/10.2210/pdb2RDK/pdb

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


• Deposited: 2007-09-24 Released: 2008-05-06 
• Deposition Author(s): Fromme, R., Katiliene, Z., Fromme, P., Ghirlanda, G.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.35 Å
• R-Value Free: 0.199 
• R-Value Work: 0.184 
• R-Value Observed: 0.185 

Biological Assembly 1  

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

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

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 24.58 kDa 
• Atom Count: 1,844 
• Modelled Residue Count: 200 
• Deposited Residue Count: 218 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cyanovirin-N	A, B	109	Nostoc ellipsosporum	Mutation(s): 5
UniProt
Find proteins for P81180 (Nostoc ellipsosporum) Explore P81180  Go to UniProtKB:  P81180

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose	C, D	2		N/A
Glycosylation Resources
GlyTouCan:  G53402KW GlyCosmos:  G53402KW GlyGen:  G53402KW

Biologically Interesting Molecules (External Reference) 1 Unique

Entity ID: 2
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_900111	C, D	2alpha-alpha-mannobiose	Oligosaccharide / Metabolism

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.35 Å
• R-Value Free: 0.199 
• R-Value Work: 0.184 
• R-Value Observed: 0.185 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 49.205	α = 90
b = 38.452	β = 99.94
c = 55.953	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-05-06 
Deposition Author(s): Fromme, R., Katiliene, Z., Fromme, P., Ghirlanda, G.

Revision History  

• Version 1.0: 2008-05-06
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Database references, Derived calculations, Structure summary
• Version 2.1: 2021-10-20
  Changes: Database references, Structure summary
• Version 2.2: 2023-08-30
  Changes: Data collection, Refinement description