1P3E

Structure of Glu endopeptidase in complex with MPD

Structural Biology Knowledgebase: 1P3E SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.72 Å
  • R-Value Free: 0.208
  • R-Value Work: 0.166

Literature

Macromolecules
Sequence Display for 1P3E

Classification: HYDROLASE

Total Structure Weight: 22901.45

Macromolecule Entities
Molecule Chains Length Organism Details
glutamyl-endopeptidase A 215 Bacillus intermedius Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A (4S)-2-METHYL-2,4-PENTANEDIOL
C6 H14 O2
SVTBMSDMJJWYQN-YFKPBYRVSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.72 Å
  • R-Value Free: 0.208
  • R-Value Work: 0.166
  • Space Group: C 1 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 61.94 α = 90.00
b = 55.76 β = 118.17
c = 60.19 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-04-17
  • Released Date: 2004-04-27
  • Deposition author(s): Meijers, R., Blagova, E.V., Levdikov, V.M., Rudenskaya, G.N., Chestukhina, G.G., Akimkina, T.V., Kostrov, S.V., Lamzin, V.S., Kuranova, I.P.

Revision History

  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values
  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4