4LJS

The crystal structure of a periplasmic binding protein from Veillonella parvula DSM 2008


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.32 Å
  • R-Value Free: 0.208
  • R-Value Work: 0.154

Literature

Macromolecules
Sequence Display for 4LJS

Classification: TRANSPORT PROTEIN

Total Structure Weight: 37310.59

Macromolecule Entities
Molecule Chains Length Organism Details
Periplasmic binding protein A 324 Veillonella parvula Fragment: UNP residues 20-340
Gene Name(s): Vpar_0062
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
PO4
Query on PO4

A PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-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 L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.32 Å
  • R-Value Free: 0.208
  • R-Value Work: 0.154
  • Space Group: P 62

Unit Cell:

Length (Å) Angle (°)
a = 82.99 α = 90.00
b = 82.99 β = 90.00
c = 110.42 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-07-05
  • Released Date: 2013-07-24
  • Deposition author(s): Tan, K., Chhor, G., Endres, M., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History

  • Version 1_0: 2013-07-24

    Type: Initial release