3RF0

Crystal Structure of Exopolyphosphatase from Yersinia pestis


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.228
  • R-Value Work: 0.177

Literature

Macromolecules
Sequence Display for 3RF0

Classification: HYDROLASE

Total Structure Weight: 49749.31

Macromolecule Entities
Molecule Chains Length Organism Details
Exopolyphosphatase A, B 209 Yersinia pestis EC#: 3.6.1.11 IUBMB
Fragment: chymotripsin-treated fragment, C-terminal fragment (UNP resiues 311-519)
Gene Name(s): ppx y1397 YP_2704 YPO2837
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NO3
Query on NO3

A, B NITRATE ION
N O3
NHNBFGGVMKEFGY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FMT
Query on FMT

A FORMIC ACID
C H2 O2
BDAGIHXWWSANSR-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

Unit Cell:

Length (Å) Angle (°)
a = 60.41 α = 90.00
b = 71.08 β = 118.29
c = 60.19 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-04-05
  • Released Date: 2011-04-27
  • Deposition author(s): Kim, Y., Zhou, M., Hasseman, J., Anderson, W.F., Joachimiak, A., Center for Structural Genomics of Infectious Diseases (CSGID)

Revision History

  • 2011-07-13
    Type: Version format compliance