2Y56

FRAGMENT GROWING INDUCES CONFORMATIONAL CHANGES IN ACETYLCHOLINE-BINDING PROTEIN: A STRUCTURAL AND THERMODYNAMIC ANALYSIS - (COMPOUND 3)

Structural Biology Knowledgebase: 2Y56 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.59 Å
  • R-Value Free: 0.203
  • R-Value Work: 0.174

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2Y56

Classification: RECEPTOR

Total Structure Weight: 127707.99

Macromolecule Entities
Molecule Chains Length Organism Details
SOLUBLE ACETYLCHOLINE RECEPTOR A, B, C, D, E 217 Aplysia californica Fragment: RESIDUES 20-236
Mutation: A41V, A136V
Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
V11
Query on V11

A, B, C, D, E [(1S,5R)-8-[(2R)-2-HYDROXY-2-PHENYL-ETHYL]- 8-AZABICYCLO[3.2.1]OCTAN-3-YL] BENZOATE
C22 H25 N O3
CAELFFAMXVUOKR-BQJUDKOJSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B, C, D, E SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A, B, C, D GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A, B, C, D, E CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
V11 Ki: 100 nM (99) BindingDB

N/A in BindingMoad
Kd: 310 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.59 Å
  • R-Value Free: 0.203
  • R-Value Work: 0.174
  • Space Group: I 2 3
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 218.93 α = 90.00
b = 218.93 β = 90.00
c = 218.93 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-01-12
  • Released Date: 2011-06-15
  • Deposition author(s): Rucktooa, P., Edink, E., Deesch, I.J.P., Sixma, T.K.

Revision History

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