SMTL ID : 2uup.1

Crystal structure of MurD ligase in complex with D-Glu containing sulfonamide inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.88 Å

Oligo State

monomer

Ligands

1 x LK4: N-({6-[(4-CYANOBENZYL)OXY]NAPHTHALEN-2-YL}SULFONYL)-D-GLUTAMIC ACID(Non-covalent)

LK4.1: 18 residues within 4Å: Chain A: I.12, G.13, D.36, T.37, R.38, L.58, S.72, G.74, I.75, F.162, H.184, T.322, K.349, A.415, S.416, L.417, N.422, F.423 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:F.162, A:A.415, A:L.417, A:L.417 Hydrogen bonds: A:T.37, A:S.416, A:F.423 Water bridges: A:S.160, A:T.322 Salt bridges: A:H.184, A:K.349

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 7 residues within 4Å: Chain A: N.114, G.115, K.116, S.117, T.118, R.303, K.320 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:G.115, A:G.115, A:S.117, A:T.118, A:T.118 Water bridges: A:N.114, A:N.114, A:N.114, A:K.116, A:K.116, A:S.326 Salt bridges: A:R.303, A:K.320 SO4.3: 7 residues within 4Å: Chain A: L.164, T.167, S.168, S.169, L.170, R.201, E.204 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.167, A:L.170, A:R.201 Water bridges: A:E.204 Salt bridges: A:R.201 SO4.4: 5 residues within 4Å: Chain A: H.310, N.311, S.439, H.440, H.441 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.311, A:H.440, A:H.441 Salt bridges: A:H.310, A:H.440

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Humljan, J. et al., Novel naphthalene-N-sulfonyl-D-glutamic acid derivatives as inhibitors of MurD, a key peptidoglycan biosynthesis enzyme. J. Med. Chem. (2008)

Release Date

2008-03-25

Peptides

UDP-N-ACETYLMURAMOYLALANINE--D-GLUTAMATE LIGASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

UDP-N-ACETYLMURAMOYLALANINE--D-GLUTAMATE LIGASE

Related Entries With Identical Sequence