4L6T

GM1 bound form of the ECX AB5 holotoxin

Structural Biology Knowledgebase: 4L6T SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.86 Å
  • R-Value Free: 0.198
  • R-Value Work: 0.178

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4L6T

Classification: HYDROLASE

Total Structure Weight: 98430.80

Macromolecule Entities
Molecule Chains Length Organism Details
ECXA A 266 Escherichia coli EC#: 3.4.24 IUBMB
Gene Name(s): ecxA
ECXB B, C, D, E, F 112 Escherichia coli Gene Name(s): ecxB

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

B, C, D, E, F O-SIALIC ACID
C11 H19 N O9
SQVRNKJHWKZAKO-YRMXFSIDSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NGA
Query on NGA

B, C, D, E, F N-ACETYL-D-GALACTOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-JAJWTYFOSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GAL
Query on GAL

B, C, D, E, F BETA-D-GALACTOSE
C6 H12 O6
WQZGKKKJIJFFOK-FPRJBGLDSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BGC
Query on BGC

B, C, D, E, F BETA-D-GLUCOSE
C6 H12 O6
WQZGKKKJIJFFOK-VFUOTHLCSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.86 Å
  • R-Value Free: 0.198
  • R-Value Work: 0.178
  • Space Group: P 65 2 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 120.44 α = 90.00
b = 120.44 β = 90.00
c = 273.48 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-06-12
  • Released Date: 2013-11-06
  • Deposition author(s): Littler, D.R., Ng, N.M., Rossjohn, J., Beddoe, T.

Revision History

  • 2013-11-20
    Type: Citation | Details: Citation update