3VDM

Crystal Structure of VldE, the pseudo-glycosyltransferase which catalyzes non-glycosidic C-N coupling in Validamycin A biosynthesis

Structural Biology Knowledgebase: 3VDM SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.98 Å
  • R-Value Free: 0.222
  • R-Value Work: 0.188

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3VDM

Classification: TRANSFERASE

Total Structure Weight: 110014.20

Macromolecule Entities
Molecule Chains Length Organism Details
VldE A, B 497 Streptomyces hygroscopicus EC#: 2.4 IUBMB
Gene Name(s): vldE SHL15_8006


Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.98 Å
  • R-Value Free: 0.222
  • R-Value Work: 0.188
  • Space Group: P 1 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 85.24 α = 90.00
b = 48.56 β = 91.88
c = 123.05 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-01-05
  • Released Date: 2013-01-09
  • Deposition author(s): Cavalier, M.C., Yim, Y.-S., Asamizu, S., Neau, D., Mahmud, T., Lee, Y.-H.

Revision History

No revisions since initial release