2A9K

Crystal structure of the C3bot-NAD-RalA complex reveals a novel type of action of a bacterial exoenzyme

Structural Biology Knowledgebase: 2A9K SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.73 Å
  • R-Value Free: 0.225
  • R-Value Work: 0.186

Literature

Macromolecules
Sequence Display for 2A9K

Classification: PROTEIN BINDING / TRANSFERASE

Total Structure Weight: 46489.36

Macromolecule Entities
Molecule Chains Length Organism Details
Ras-related protein Ral-A A 187 Homo sapiens Gene Name(s): RALA Gene View RAL
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Mono-ADP-ribosyltransferase C3 B 223 Clostridium phage c-st EC#: 2.4.2 IUBMB
Gene Name(s): C3 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

B NICOTINAMIDE-ADENINE-DINUCLEOTIDE
C21 H27 N7 O14 P2
BAWFJGJZGIEFAR-NNYOXOHSSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GDP
Query on GDP

A GUANOSINE-5'-DIPHOSPHATE
C10 H15 N5 O11 P2
QGWNDRXFNXRZMB-UUOKFMHZSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

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

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.73 Å
  • R-Value Free: 0.225
  • R-Value Work: 0.186
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 35.26 α = 90.00
b = 113.85 β = 106.40
c = 56.31 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2005-07-12
  • Released Date: 2005-10-11
  • Deposition author(s): Pautsch, A., Vogelsgesang, M., Trankle, J., Herrmann, C., Aktories, K.

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