1H0M

THREE-DIMENSIONAL STRUCTURE OF THE QUORUM SENSING PROTEIN TRAR BOUND TO ITS AUTOINDUCER AND TO ITS TARGET DNA

Structural Biology Knowledgebase: 1H0M SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.285
  • R-Value Work: 0.233

Literature

Macromolecules
Sequence Display for 1H0M

Classification: TRANSCRIPTION / DNA

Total Structure Weight: 131340.81


Macromolecule Entities
Molecule Chains Length Organism Details
TRANSCRIPTIONAL ACTIVATOR PROTEIN TRAR A, B, C, D 234 Agrobacterium tumefaciens Details: TRANSCRIPTIONAL ACTIVATOR PROTEIN TRAR FROM AGROBACTERIUM TUMEFACIENS
Gene Name(s): traR
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
5'-D(*AP*TP*GP*TP*GP*CP*AP*GP*AP*TP *CP*TP*GP*CP*AP*CP*AP*T)-3' E, F, G, H 18 synthetic TRABOX

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

A, B, C, D 3-OXOOCTANOIC ACID
C8 H14 O3
FWNRRWJFOZIGQZ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
HSL
Query on HSL

A, B, C, D HOMOSERINE LACTONE
C4 H7 N O2
QJPWUUJVYOJNMH-VKHMYHEASA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A, B, C, D L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.285
  • R-Value Work: 0.233
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 66.99 α = 90.00
b = 94.68 β = 90.00
c = 209.67 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-06-25
  • Released Date: 2002-08-29
  • Deposition author(s): Vannini, A., Volpari, C., Gargioli, C., Muraglia, E., Cortese, R., De Francesco, R., Neddermann, P., Di Marco, S.

Revision History

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