1EHI

D-ALANINE:D-LACTATE LIGASE (LMDDL2) OF VANCOMYCIN-RESISTANT LEUCONOSTOC MESENTEROIDES

Structural Biology Knowledgebase: 1EHI SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.38 Å
  • R-Value Free: 0.257
  • R-Value Work: 0.184

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1EHI

Classification: LIGASE

Total Structure Weight: 84485.60

Macromolecule Entities
Molecule Chains Length Organism Details
D-ALANINE:D-LACTATE LIGASE A, B 377 Leuconostoc mesenteroides EC#: 6.3.2.4 IUBMB
Mutation: E270Q
Gene Name(s): ddl LEUM_0264
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

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

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

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

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.38 Å
  • R-Value Free: 0.257
  • R-Value Work: 0.184
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 118.20 α = 90.00
b = 90.80 β = 92.10
c = 82.10 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2000-02-21
  • Released Date: 2000-05-23
  • Deposition author(s): Kuzin, A.P., Sun, T., Jorczak-Baillass, J., Healy, V.L., Walsh, C.T., Knox, J.R.

Revision History

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