3GP6

Crystal structure of PagP in SDS/MPD


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.4 Å
  • R-Value Free: 0.208
  • R-Value Work: 0.171

Literature

Macromolecules
Sequence Display for 3GP6

Classification: TRANSFERASE

Total Structure Weight: 22610.82

Macromolecule Entities
Molecule Chains Length Organism Details
Protein pagP A 163 Escherichia coli EC#: 2.3.1.251 IUBMB
Gene Name(s): pagP crcA ybeG b0622 JW0617
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Membrane Protein

Source: mpstruc | Group: BETA-BARREL

Subgroup Name: Beta-Barrel Membrane Proteins: Monomeric/Dimeric

Protein Name: PagP outer membrane palimitoyl transferease


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

A DODECYL SULFATE
C12 H26 O4 S
MOTZDAYCYVMXPC-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MPD
Query on MPD

A (4S)-2-METHYL-2,4-PENTANEDIOL
C6 H14 O2
SVTBMSDMJJWYQN-YFKPBYRVSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MRD
Query on MRD

A (4R)-2-METHYLPENTANE-2,4-DIOL
C6 H14 O2
SVTBMSDMJJWYQN-RXMQYKEDSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
LI
Query on LI

A LITHIUM ION
Li
HBBGRARXTFLTSG-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.4 Å
  • R-Value Free: 0.208
  • R-Value Work: 0.171
  • Space Group: P 62 2 2

Unit Cell:

Length (Å) Angle (°)
a = 113.23 α = 90.00
b = 113.23 β = 90.00
c = 55.06 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-03-20
  • Released Date: 2010-06-23
  • Deposition author(s): Cuesta-Seijo, J.A., Prive, G.G.

Revision History

  • Version 1_0: 2010-06-23

    Type: Initial release

  • Version 1_1: 2011-07-13

    Type: Version format compliance