2F29

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


Experimental Data Snapshot

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

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


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
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Sialidase 2 AB382Homo sapiensMutation(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
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
DAN
Query on DAN

Download Ideal Coordinates CCD File 
A, B
2-DEOXY-2,3-DEHYDRO-N-ACETYL-NEURAMINIC ACID
C11 H17 N O8
JINJZWSZQKHCIP-UFGQHTETSA-N
 Ligand Interaction
EPE
Query on EPE

Download Ideal Coordinates CCD File 
A, B
4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
C8 H18 N2 O4 S
JKMHFZQWWAIEOD-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
DANIC50:  40000   nM  BindingDB
DANIC50:  37000   nM  BindingDB
DANKi:  25000   nM  BindingDB
DANIC50:  43000   nM  BindingDB
DANIC50:  18000   nM  BindingDB
DANKi:  5000   nM  BindingDB
DANKi:  140000   nM  BindingDB
DANIC50:  45500   nM  BindingDB
DANIC50:  90000   nM  BindingDB
DANIC50:  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 = 157.29α = 90
b = 73.98β = 93.14
c = 77.18γ = 90
Software Package:
Software NamePurpose
CNSrefinement
PDB_EXTRACTdata extraction
HKL-2000data reduction
SCALEPACKdata scaling
MOLREPphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

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