2XZ5

MMTS-modified Y53C mutant of Aplysia AChBP in complex with acetylcholine

Structural Biology Knowledgebase: 2XZ5 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.219
  • R-Value Work: 0.173

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2XZ5

Classification: RECEPTOR

Total Structure Weight: 127232.73

Macromolecule Entities
Molecule Chains Length Organism Details
SOLUBLE ACETYLCHOLINE RECEPTOR A, B, C, D, E 217 Aplysia californica Fragment: RESIDUES 20-236
Mutation: A41V, Y53X, A136V
Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

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

A, B, C, D, E ACETYLCHOLINE
C7 H16 N O2
OIPILFWXSMYKGL-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MPD
Query on MPD

A, B, C, D, E (4S)-2-METHYL-2,4-PENTANEDIOL
C6 H14 O2
SVTBMSDMJJWYQN-YFKPBYRVSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PO4
Query on PO4

A, B, C, D, E PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
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 %)
ACH N/A in BindingDB
N/A in BindingMoad
Ki: 98300 nM  PDBbind
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
SCH
Query on SCH
A, B, C, D, E L-PEPTIDE LINKING C4 H9 N O2 S2 CYS

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.219
  • R-Value Work: 0.173
  • Space Group: C 2 2 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 82.12 α = 90.00
b = 119.40 β = 90.00
c = 267.74 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2010-11-23
  • Released Date: 2010-12-08
  • Deposition author(s): Brams, M., Gay, E.A., Colon Saez, J., Guskov, A., van Elk, R., van der Schors, R.C., Peigneur, S., Tytgat, J., Strelkov, S.V., Smit, A.B., Yakel, J.L., Ulens, C.

Revision History

  • 2014-02-05
    Type: Refinement description | Details: REMARK 3
  • 2011-08-10
    Type: Version format compliance | Details: REMARK 4
  • 2011-08-10
    Type: Other | Details: ANISOU,REMARK 100
  • 2011-08-10
    Type: Atom nomenclature | Details: HETATM