5DS0

Crystal structure of TET aminopeptidase from marine sediment archaeon Thaumarchaeota archaeon SCGC AB-539-E09


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.206
  • R-Value Work: 0.193

Literature

Macromolecules
Sequence Display for 5DS0

Classification: HYDROLASE

Total Structure Weight: 480810.22

Macromolecule Entities
Molecule Chains Length Organism Details
Peptidase M42 A, B, C..., D, E, F, G, H, I, J, K, LA, B, C, D, E, F, G, H, I, J, K, L 359 Thaumarchaeota archaeon scgc ab-539-e09 Gene Name(s): MCGE09_00274
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B, C, E, G, H, I, J, K, L GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CO
Query on CO

A, B, C, D, E, F, G, H, I, J, K, L COBALT (II) ION
Co
XLJKHNWPARRRJB-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, C, D, E, F, G, H, I, J, K, L L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

Unit Cell:

Length (Å) Angle (°)
a = 114.64 α = 90.00
b = 165.37 β = 90.87
c = 125.79 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2015-09-16
  • Released Date: 2015-10-14
  • Deposition author(s): Michalska, K., Chhor, G., Mootz, J., Endres, M., Jedrzejczak, R., Babnigg, G., Steen, A., Lloyd, K., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History

No revisions since initial release