SMTL ID : 1ehi.1

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

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.38 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: E.316, N.318 Ligands: ADP.3, PHY.4 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.316, A:E.316 MG.2: 4 residues within 4Å: Chain A: D.303, E.316 Ligands: ADP.3, PHY.4 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:E.316

1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.3: 23 residues within 4Å: Chain A: K.136, T.151, F.178, K.180, Q.184, G.185, S.186, S.187, I.190, E.216, E.217, A.218, V.219, E.224, Q.248, W.254, Y.255, K.260, L.305, E.316 Ligands: MG.1, MG.2, PHY.4 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:T.151, A:K.180, A:S.186, A:S.187, A:E.216, A:V.219, A:E.224, A:Q.248, A:Y.255 Water bridges: A:K.136, A:V.188 Salt bridges: A:K.136, A:K.136, A:K.180, A:K.260 pi-Stacking: A:F.178, A:F.178

1 x PHY: 1(S)-AMINOETHYL-(2-CARBOXYPROPYL)PHOSPHORYL-PHOSPHINIC ACID(Non-covalent)

PHY.4: 14 residues within 4Å: Chain A: E.16, S.186, K.260, F.261, R.301, D.303, E.316, N.318, G.322, M.326, S.327 Ligands: MG.1, MG.2, ADP.3 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:E.16, A:S.186, A:R.301, A:R.301, A:D.303, A:N.318, A:G.322, A:L.328 Water bridges: A:K.260, A:K.260 Salt bridges: A:K.260, A:R.301, A:R.301

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kuzin, A.P. et al., Enzymes of vancomycin resistance: the structure of D-alanine-D-lactate ligase of naturally resistant Leuconostoc mesenteroides. Structure Fold.Des. (2000)

Release Date

2000-05-23

Peptides

D-ALANINE:D-LACTATE LIGASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

D-ALANINE:D-LACTATE LIGASE