SMTL ID : 2xpc.1

Second-generation sulfonamide inhibitors of MurD: Activity optimisation with conformationally rigid analogues of D-glutamic acid

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.49 Å

Oligo State

monomer

Ligands

1 x 051: (1R,3R,4S)-4-[({6-[(4-CYANO-2-FLUOROBENZYL)OXY]NAPHTHALEN-2-YL}SULFONYL)AMINO]CYCLOHEXANE-1,3-DICARBOXYLIC ACID(Non-covalent)

051.1: 17 residues within 4Å: Chain A: I.11, G.12, D.35, T.36, R.37, S.71, G.73, F.161, H.183, T.321, K.348, A.414, S.415, L.416, N.421, F.422 Ligands: DMS.3 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:F.161, A:T.321, A:A.414, A:L.416 Hydrogen bonds: A:T.36, A:S.71, A:S.415, A:F.422 Water bridges: A:T.321 Salt bridges: A:H.183, A:K.348

3 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.2: 8 residues within 4Å: Chain A: L.163, T.166, S.167, S.168, L.169, R.200, I.201, E.203 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.169 DMS.3: 4 residues within 4Å: Chain A: G.73, D.185, R.186 Ligands: 051.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.186 Salt bridges: A:D.185 DMS.4: 3 residues within 4Å: Chain A: E.308, H.309, N.310 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.310

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

SO4.5: 7 residues within 4Å: Chain A: N.113, G.114, K.115, S.116, T.117, R.302, K.319 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:G.114, A:G.114, A:S.116, A:T.117, A:T.117 Water bridges: A:N.113, A:K.115, A:K.115, A:S.325 Salt bridges: A:R.302, A:K.319 SO4.6: 4 residues within 4Å: Chain A: H.309, N.310, S.438, H.439 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.310, A:H.439 Salt bridges: A:H.309, A:H.439 SO4.7: 4 residues within 4Å: Chain A: L.13, G.14, L.15, T.16 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.14, A:L.15, A:T.16 Water bridges: A:G.17 SO4.8: 2 residues within 4Å: Chain A: R.37, M.38 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:M.38 Water bridges: A:T.39

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.9: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sosi, I. et al., Second-Generation Sulfonamide Inhibitors of D- Glutamic Acid-Adding Enzyme: Activity Optimisation with Conformationally Rigid Analogues of D- Glutamic Acid. Eur.J.Med.Chem (2011)

Release Date

2011-05-18

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

UDP-N-ACETYLMURAMOYLALANINE--D-GLUTAMATE LIGASE

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