SMTL ID : 1d0k.1

THE ESCHERICHIA COLI LYTIC TRANSGLYCOSYLASE SLT35 IN COMPLEX WITH TWO MURODIPEPTIDES (GLCNAC-MURNAC-L-ALA-D-GLU)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.02 Å

Oligo State

monomer

Ligands

2 x AMU- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-N-acetyl-beta-muramic acid(Non-covalent)

AMU-NAG.1: 19 residues within 4Å: Chain A: M.56, Q.59, E.123, R.149, Y.152, A.179, Q.186, F.187, M.188, S.191, Y.220, R.298, Y.299, N.300, H.301 Ligands: AMU-NAG.2, ALA.4, DGL.5, GOL.8 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:A.179, A:F.187, A:Y.220, A:Y.299 Hydrogen bonds: A:Q.59, A:R.149, A:R.149, A:N.300, A:M.188, A:S.191, A:S.191, A:Y.220, A:Y.299 Water bridges: A:Y.152, A:S.177, A:S.177, A:Y.152, A:R.298, A:H.301 AMU-NAG.2: 14 residues within 4Å: Chain A: Y.78, K.81, F.82, G.121, V.122, E.123, R.125, V.129, Q.186, N.300, Y.305 Ligands: AMU-NAG.1, ALA.6, DGL.7 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.121, A:R.125, A:Y.78, A:Y.78, A:E.123, A:E.123, A:N.300 Water bridges: A:F.178

1 x CA: CALCIUM ION(Non-covalent)

CA.3: 5 residues within 4Å: Chain A: D.198, S.200, D.202, H.204, D.212 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.198, A:S.200, A:H.204, A:D.212, H2O.3

2 x ALA: ALANINE(Non-covalent)

ALA.4: 4 residues within 4Å: Chain A: R.149 Ligands: AMU-NAG.1, AMU-NAG.1, DGL.5 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.149, A:R.149 ALA.6: 6 residues within 4Å: Chain A: Y.78, K.81, F.82 Ligands: AMU-NAG.2, AMU-NAG.2, DGL.7 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.78, A:K.81, A:F.82 Water bridges: A:Y.78

2 x DGL: D-GLUTAMIC ACID(Non-covalent)

DGL.5: 5 residues within 4Å: Chain A: P.61, R.148, R.149 Ligands: AMU-NAG.1, ALA.4 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.148, A:R.149 DGL.7: 4 residues within 4Å: Chain A: Y.78, H.304 Ligands: AMU-NAG.2, ALA.6 4 PLIP interactions: 1 Ligand-Ligand interactions, 3 interactions with chain A Hydrogen bonds: A.6 Hydrophobic interactions: A:Y.78 Water bridges: A:K.81 Salt bridges: A:H.304

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.8: 8 residues within 4Å: Chain A: Q.186, F.187, M.188, S.191, Y.220, Y.299 Ligands: AMU-NAG.1, AMU-NAG.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:M.188, A:S.191, A:Y.220, A:Y.299

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

van Asselt, E.J. et al., Crystallographic studies of the interactions of Escherichia coli lytic transglycosylase Slt35 with peptidoglycan. Biochemistry (2000)

Release Date

2000-03-06

Peptides

35KD SOLUBLE LYTIC TRANSGLYCOSYLASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

35KD SOLUBLE LYTIC TRANSGLYCOSYLASE

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