1E4E

D-alanyl-D-lacate ligase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.257
  • R-Value Work: 0.183

Literature

Macromolecules
Sequence Display for 1E4E

Classification: LIGASE

Total Structure Weight: 78272.58

Macromolecule Entities
Molecule Chains Length Organism Details
VANCOMYCIN/TEICOPLANIN A-TYPE RESISTANCE PROTEIN VANA A 343 Enterococcus faecium EC#: 6.1.2.1 IUBMB
Mutation: D62E, A276V, A282T, A328S
Gene Name(s): vanA
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
VANCOMYCIN/TEICOPLANIN A-TYPE RESISTANCE PROTEIN VANA B 343 Enterococcus faecium EC#: 6.1.2.1 IUBMB
Mutation: D62E, A276V, A282T, N298R, A328S
Gene Name(s): vanA

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
ADP
Query on ADP

A, B ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PHY
Query on PHY

A, B 1(S)-AMINOETHYL-(2-CARBOXYPROPYL)PHOSPHORYL- PHOSPHINIC ACID
C6 H15 N O7 P2
BAIYWTZQRMCJBV-DKDXWZAISA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A, B GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, B MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.257
  • R-Value Work: 0.183
  • Space Group: C 2 2 21

Unit Cell:

Length (Å) Angle (°)
a = 123.20 α = 90.00
b = 225.36 β = 90.00
c = 72.44 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2000-07-03
  • Released Date: 2001-06-28
  • Deposition author(s): Roper, D.I.

Revision History

  • 2011-09-21
    Type: Atomic model, Data collection, Derived calculations, Non-polymer description, Other, Source and taxonomy, Structure summary, Version format compliance