2EKG

Structure of Thermus thermophilus Proline Dehydrogenase inactivated by N-propargylglycine


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.222
  • R-Value Work: 0.195

Literature

Macromolecules
Sequence Display for 2EKG

Classification: OXIDOREDUCTASE

Total Structure Weight: 79776.63

Macromolecule Entities
Molecule Chains Length Organism Details
Proline dehydrogenase/delta-1-pyrroline-5-carboxylate dehydrogenase A, B 327 Thermus thermophilus EC#: 1.5.5.2 IUBMB
Gene Name(s): TT_C1214
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B FLAVIN-ADENINE DINUCLEOTIDE
C27 H33 N9 O15 P2
VWWQXMAJTJZDQX-UYBVJOGSSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MPD
Query on MPD

A, B (4S)-2-METHYL-2,4-PENTANEDIOL
C6 H14 O2
SVTBMSDMJJWYQN-YFKPBYRVSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
LYX
Query on LYX
A, B L-PEPTIDE LINKING C30 H52 N9 O19 P3 S LYS

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.222
  • R-Value Work: 0.195
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 82.38 α = 90.00
b = 90.10 β = 90.00
c = 94.83 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2007-03-23
  • Released Date: 2008-04-01
  • Deposition author(s): White, T.A., Tanner, J.J.

Revision History

  • Version 1_0: 2008-04-01

    Type: Initial release

  • Version 1_1: 2011-07-13

    Type: Advisory, Version format compliance