4MXP

Structural Basis for PI(4)P-Specific Membrane Recruitment of the Legionella pneumophila Effector DrrA/SidM

Structural Biology Knowledgebase: 4MXP SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.83 Å
  • R-Value Free: 0.208
  • R-Value Work: 0.189

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4MXP

Classification: PI(4)P-BINDING PROTEIN

Total Structure Weight: 37691.87

Macromolecule Entities
Molecule Chains Length Organism Details
Defects in Rab1 recruitment protein A A 328 Legionella pneumophila EC#: 2.7.7 IUBMB
Fragment: GEF and P4M domains, UNP residues 330-647
Gene Name(s): drrA sidM lpg2464

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
DB4
Query on DB4

A (2R)-3-{[(R)-hydroxy{[(1R,2R,3R,4R,5S,6R)- 2,3,5,6-tetrahydroxy-4-(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}propane- 1,2-diyl dibutanoate
C17 H32 O16 P2
GZEWZLHSHLUSGP-HDIZFQRBSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

A SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
DB4 N/A in BindingDB
Kd: 3.8 nM  BindingMOAD
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.83 Å
  • R-Value Free: 0.208
  • R-Value Work: 0.189
  • Space Group: I 41
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 128.55 α = 90.00
b = 128.55 β = 90.00
c = 53.22 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-09-26
  • Released Date: 2014-03-19
  • Deposition author(s): Del Campo, C.M., Mishra, A.K., Wang, Y.H., Roy, C.R., Janmey, P.A., Lambright, D.G.

Revision History

  • 2014-03-26
    Type: Citation | Details: Citation update