5V4F

Crystal Structure of the Protein of Unknown Function of the Conserved Rid Protein Family YyfB from Yersinia pestis

Structural Biology Knowledgebase: 5V4F SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.200
  • R-Value Work: 0.155

Literature

Macromolecules
Sequence Display for 5V4F

Classification: Structural genomics unknown function

Total Structure Weight: 30313.55

Macromolecule Entities
Molecule Chains Length Organism Details
Putative translational inhibitor protein A, B 137 Yersinia pestis Gene Name(s): tdcF4 y3550 YP_2945 YPO0628
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
GOL
Query on GOL

A, B 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, B L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.200
  • R-Value Work: 0.155
  • Space Group: P 21 3

Unit Cell:

Length (Å) Angle (°)
a = 129.21 α = 90.00
b = 129.21 β = 90.00
c = 129.21 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2017-03-09
  • Released Date: 2017-04-05
  • Deposition author(s): Kim, Y., Chhor, G., Endres, M., Krishnan, A., Babnigg, G., Schneewind, O., Anderson, W.F., Joachimiak, A., Chicago Center for Functional Genomics, Center for Structural Genomics of Infectious Diseases (CSGID)

Revision History

No revisions since initial release