3R6D

Crystal structure of NAD-dependent epimerase/dehydratase from Veillonella parvula DSM 2008 with Cz-methylated lysine

Structural Biology Knowledgebase: 3R6D SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.25 Å
  • R-Value Free: 0.179
  • R-Value Work: 0.148

Literature

Macromolecules
Sequence Display for 3R6D

Classification: LYASE ISOMERASE

Total Structure Weight: 24996.79

Macromolecule Entities
Molecule Chains Length Organism Details
NAD-dependent epimerase/dehydratase A 221 Veillonella parvula Gene Name(s): Vpar_0111
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Modified Residues 2 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A L-PEPTIDE LINKING C5 H11 N O2 Se MET
MLZ
Query on MLZ
A L-PEPTIDE LINKING C7 H16 N2 O2 LYS

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.25 Å
  • R-Value Free: 0.179
  • R-Value Work: 0.148
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 51.45 α = 90.00
b = 60.72 β = 90.00
c = 69.61 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-03-21
  • Released Date: 2011-04-20
  • Deposition author(s): Chang, C., Hatzos-Skintges, C., Clancy, S., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4