2A5D

Structural basis for the activation of cholera toxin by human ARF6-GTP

Structural Biology Knowledgebase: 2A5D SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.199
  • R-Value Work: 0.167

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2A5D

Classification: PROTEIN TRANSPORT / TRANSFERASE

Total Structure Weight: 42483.85

Macromolecule Entities
Molecule Chains Length Organism Details
ADP-ribosylation factor 6 A 175 Homo sapiens Gene Name(s): ARF6 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Cholera enterotoxin, A chain B 193 Vibrio cholerae EC#: 2.4.2.36 IUBMB
Fragment: A1 subunit
Mutation: E110D, E112D, C187S
Gene Name(s): ctxA toxA VC_1457
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A GUANOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O14 P3
XKMLYUALXHKNFT-UUOKFMHZSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

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

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

B SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.199
  • R-Value Work: 0.167
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 44.92 α = 90.00
b = 91.45 β = 90.00
c = 98.55 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2005-06-30
  • Released Date: 2005-08-16
  • Deposition author(s): O'Neal, C.J., Jobling, M.G., Holmes, R.K., Hol, W.G.J.

Revision History

  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4