Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

 3D View: Structure | Electron Density | Ligand Interaction

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

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 86.38 kDa 
• Atom Count: 6005 
• Residue Count: 740 
• Unique protein chains: 1

2F29

Crystal Structure of the Human Sialidase Neu2 Q116E Mutant in Complex with DANA Inhibitor

• DOI: 10.2210/pdb2F29/pdb

• Classification: HYDROLASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21
• Mutation(s): Yes 


• Deposited: 2005-11-15 Released: 2006-11-21 
• Deposition Author(s): Chavas, L.M.G., Kato, R., Fusi, P., Tringali, C., Venerando, B., Tettamanti, G., Monti, E., Wakatsuki, S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.92 Å
• R-Value Free: 0.265 
• R-Value Work: 0.188 

Literature

Crystal Structure of the Human Sialidase Neu2 Q116E Mutant in Complex with DANA Inhibitor

Chavas, L.M.G., Kato, R., Fusi, P., Tringali, C., Venerando, B., Tettamanti, G., Monti, E., Wakatsuki, S.

To be published.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Sialidase 2	A, B	382	Homo sapiens	Mutation(s): 1  Gene Names: NEU2 EC: 3.2.1.18
Find proteins for Q9Y3R4 (Homo sapiens) Explore Q9Y3R4  Go to UniProtKB:  Q9Y3R4
NIH Common Fund Data Resources
PHAROS:  Q9Y3R4 GTEx:  ENSG00000115488

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
DAN	A, B	2-DEOXY-2,3-DEHYDRO-N-ACETYL-NEURAMINIC ACID C11 H17 N O8 JINJZWSZQKHCIP-UFGQHTETSA-N
EPE	A, B	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID C8 H18 N2 O4 S JKMHFZQWWAIEOD-UHFFFAOYSA-N

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
DAN	IC50:  40000   nM  BindingDB
DAN	IC50:  37000   nM  BindingDB
DAN	Ki:  25000   nM  BindingDB
DAN	IC50:  43000   nM  BindingDB
DAN	IC50:  18000   nM  BindingDB
DAN	Ki:  5000   nM  BindingDB
DAN	Ki:  140000   nM  BindingDB
DAN	IC50:  45500   nM  BindingDB
DAN	IC50:  90000   nM  BindingDB
DAN	IC50:  50000   nM  BindingDB

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.92 Å
• R-Value Free: 0.265 
• R-Value Work: 0.188 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 157.29	α = 90
b = 73.98	β = 93.14
c = 77.18	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
SCALEPACK	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2005-11-15 
• Released Date: 2006-11-21 
Deposition Author(s): Chavas, L.M.G., Kato, R., Fusi, P., Tringali, C., Venerando, B., Tettamanti, G., Monti, E., Wakatsuki, S.

Revision History 

• Version 1.0: 2006-11-21
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Database references, Derived calculations