4ALZ

The Yersinia T3SS basal body component YscD reveals a different structural periplasmatic domain organization to known homologue PrgH

Structural Biology Knowledgebase: 4ALZ SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.4 Å
  • R-Value Free: 0.226
  • R-Value Work: 0.189

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4ALZ

Classification: MEMBRANE PROTEIN

Total Structure Weight: 22741.73

Macromolecule Entities
Molecule Chains Length Organism Details
YOP PROTEINS TRANSLOCATION PROTEIN D A 198 Yersinia enterocolitica Fragment: PERIPLASMATIC DOMAIN, RESIDUES 150-347
Mutation: G283P
Gene Name(s): yscD

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
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.4 Å
  • R-Value Free: 0.226
  • R-Value Work: 0.189
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 37.99 α = 90.00
b = 51.55 β = 106.08
c = 50.63 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-03-06
  • Released Date: 2013-04-24
  • Deposition author(s): Schmelz, S., Wisand, U., Stenta, M., Muenich, S., Widow, U., Cornelis, G.R., Heinz, D.W.

Revision History

  • 2013-11-13
    Type: Citation | Details: JRNL