3O9P

The structure of the Escherichia coli murein tripeptide binding protein MppA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.07 Å
  • R-Value Free: 0.218
  • R-Value Work: 0.172

Literature

Macromolecules
Sequence Display for 3O9P

Classification: PEPTIDE BINDING PROTEIN / PEPTIDE

Total Structure Weight: 58689.18

Macromolecule Entities
Molecule Chains Length Organism Details
Periplasmic murein peptide-binding protein A 519 Escherichia coli Fragment: UNP residues 23-537
Gene Name(s): mppA ynaH b1329 JW1322
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A L-ALA-GAMMA-D-GLU-MESO-DIAMINOPIMELIC ACID
C15 H26 N4 O8
FMNCPUGORYYCEM-QCLAVDOMSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
MHI N/A in BindingDB
Kd: 300 nM  BindingMOAD
Kd: 300 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.07 Å
  • R-Value Free: 0.218
  • R-Value Work: 0.172
  • Space Group: P 6

Unit Cell:

Length (Å) Angle (°)
a = 165.07 α = 90.00
b = 165.07 β = 90.00
c = 38.17 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2010-08-04
  • Released Date: 2011-07-06
  • Deposition author(s): Maqbool, A., Levdikov, V.M., Blagova, E.V., Wilkinson, A.J., Thomas, G.H.

Revision History

  • 2011-09-21
    Type: Citation | Details: Citation update
  • 2011-09-14
    Type: Citation | Details: Citation update
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4