3NPF

Crystal structure of a putative dipeptidyl-peptidase VI (BACOVA_00612) from Bacteroides ovatus at 1.72 A resolution


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.72 Å
  • R-Value Free: 0.171
  • R-Value Work: 0.141

Literature

Macromolecules
Sequence Display for 3NPF

Classification: HYDROLASE

Total Structure Weight: 71394.08

Macromolecule Entities
Molecule Chains Length Organism Details
putative dipeptidyl-peptidase VI A, B 306 Bacteroides ovatus Gene Name(s): BACOVA_00612
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 GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A, B CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 2 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A, B L-PEPTIDE LINKING C5 H11 N O2 Se MET
CSA
Query on CSA
A, B L-PEPTIDE LINKING C6 H11 N O3 S CYS

Experimental Data & Validation

Experimental Data

Unit Cell:

Length (Å) Angle (°)
a = 60.14 α = 90.00
b = 62.49 β = 90.00
c = 156.81 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2010-06-28
  • Released Date: 2010-07-28
  • Deposition author(s): Joint Center for Structural Genomics (JCSG)

Revision History

  • Version 1_0: 2010-07-28

    Type: Initial release

  • Version 1_1: 2011-07-13

    Type: Version format compliance