2WHP

CRYSTAL STRUCTURE OF ACETYLCHOLINESTERASE, PHOSPHONYLATED BY SARIN AND IN COMPLEX WITH HI-6

Structural Biology Knowledgebase: 2WHP SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.210
  • R-Value Work: 0.175

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2WHP

Classification: HYDROLASE

Total Structure Weight: 122385.30

Macromolecule Entities
Molecule Chains Length Organism Details
ACETYLCHOLINESTERASE A 548 Mus musculus EC#: 3.1.1.7 IUBMB
Fragment: CATALYTIC DOMAIN, RESIDUES 32-573
Details: CATALYTIC SER203 PHOSPHONYLATED BY SARIN
Gene Name(s): Ache
ACETYLCHOLINESTERASE B 548 Mus musculus EC#: 3.1.1.7 IUBMB
Fragment: CATALYTIC DOMAIN, RESIDUES 32-573
Mutation: Q499D
Details: CATALYTIC SER203 PHOSPHONYLATED BY SARIN
Gene Name(s): Ache

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
HI6
Query on HI6

A, B 4-(AMINOCARBONYL)-1-[({2-[(E)-(HYDROXYIMINO)METHYL]PYRIDINIUM- 1-YL}METHOXY)METHYL]PYRIDINIUM
1-(2-HYDROXY-IMINOMETHYLPYRIDINIUM)-1-(4- CARBOXYAMINO)-PYRIDINIUM DIMETHYLETHER (Synonym)
C14 H16 N4 O3
FJZDLOMCEPUCII-UHFFFAOYSA-P
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
P6G
Query on P6G

B HEXAETHYLENE GLYCOL
POLYETHYLENE GLYCOL PEG400 (Synonym)
C12 H26 O7
IIRDTKBZINWQAW-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NAG
Query on NAG

A, B N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PEG
Query on PEG

B DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CO3
Query on CO3

A CARBONATE ION
C O3
BVKZGUZCCUSVTD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
HI6 N/A in BindingDB
Kd: 100000 nM  BindingMOAD
Kd: 100000 nM  PDBbind
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
SGB
Query on SGB
A, B L-PEPTIDE LINKING C7 H16 N O5 P SER

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.210
  • R-Value Work: 0.175
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 79.26 α = 90.00
b = 112.15 β = 90.00
c = 226.95 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-05-06
  • Released Date: 2009-06-30
  • Deposition author(s): Ekstrom, F., Hornberg, A., Artursson, E., Hammarstrom, L.G., Schneider, G., Pang, Y.P.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4