SMTL ID : 1qte.1

CRYSTAL STRUCTURE OF THE 70 KDA SOLUBLE LYTIC TRANSGLYCOSYLASE SLT70 FROM ESCHERICHIA COLI AT 1.90 A RESOLUTION IN COMPLEX WITH A 1,6-ANHYDROMUROTRIPEPTIDE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)

NAG.1: 9 residues within 4Å: Chain A: Q.477, E.478, V.485, S.487, Q.496, N.553, E.583, Y.587 Ligands: AH0.17 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:V.485 Hydrogen bonds: A:Q.477, A:E.478, A:Q.496, A:N.553 Water bridges: A:S.487, A:E.583

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

SO4.2: 6 residues within 4Å: Chain A: R.349, G.350, R.448, A.593, Y.594, Y.597 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.349 Salt bridges: A:R.349, A:R.448 SO4.3: 3 residues within 4Å: Chain A: R.7, R.389, Y.393 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.389 Salt bridges: A:R.7, A:R.389 SO4.4: 4 residues within 4Å: Chain A: Q.283, S.284, T.285, S.286 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.284, A:T.285, A:T.285, A:S.286 Water bridges: A:S.284 SO4.5: 5 residues within 4Å: Chain A: L.396, D.397, N.398, T.399, K.484 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.398, A:N.398, A:T.399, A:T.399, A:T.399 Water bridges: A:N.395 SO4.6: 4 residues within 4Å: Chain A: W.113, S.118, W.122, S.149 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.118 Water bridges: A:W.122, A:K.151, A:K.151 SO4.7: 3 residues within 4Å: Chain A: G.209, A.210, Q.245 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.208, A:A.210, A:Q.245 SO4.8: 3 residues within 4Å: Chain A: P.54, A.55, R.85 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:A.55 Water bridges: A:V.56, A:R.85, A:R.85 Salt bridges: A:R.85 SO4.9: 3 residues within 4Å: Chain A: M.498, P.499, G.500 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.500 Water bridges: A:T.501, A:T.501 SO4.10: 2 residues within 4Å: Chain A: N.247, E.248 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.248, A:E.248 Water bridges: A:D.249 SO4.11: 2 residues within 4Å: Chain A: P.467, Q.468 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.468 Water bridges: A:S.469 SO4.12: 3 residues within 4Å: Chain A: R.147, P.181, A.182 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.182 Salt bridges: A:R.147 SO4.13: 2 residues within 4Å: Chain A: R.162, K.166 4 PLIP interactions: 4 interactions with chain A Water bridges: A:K.166, A:K.166 Salt bridges: A:R.162, A:K.166

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.14: 6 residues within 4Å: Chain A: Y.10, K.14, Y.40, L.391, L.396 Ligands: GOL.22 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:Y.40, A:L.391 Hydrogen bonds: A:Y.10, A:Y.10 Water bridges: A:K.14, A:K.14 Salt bridges: A:K.14

1 x ALA: ALANINE(Non-covalent)

ALA.15: 3 residues within 4Å: Chain A: W.442 Ligands: DAL.16, AH0.17 No protein-ligand interaction detected (PLIP)

1 x DAL: D-ALANINE(Non-covalent)

DAL.16: 6 residues within 4Å: Chain A: I.437, R.448, R.476, Y.594 Ligands: ALA.15, AH0.17 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.594 Water bridges: A:R.448, A:Y.594 Salt bridges: A:R.448, A:R.476

1 x AH0: 2-(2-ACETYLAMINO-4-HYDROXY-6,8-DIOXA-BICYCLO[3.2.1]OCT-3-YLOXY)-PROPIONIC ACID(Non-covalent)

AH0.17: 5 residues within 4Å: Chain A: Q.477, N.590 Ligands: NAG.1, ALA.15, DAL.16 No protein-ligand interaction detected (PLIP)

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.18: 6 residues within 4Å: Chain A: L.155, L.158, Y.184, T.211, F.213, T.214 2 PLIP interactions: 2 interactions with chain A Water bridges: A:T.211, A:F.213 GOL.19: 5 residues within 4Å: Chain A: R.359, D.571, A.572, V.573, W.614 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.359, A:A.572 GOL.20: 6 residues within 4Å: Chain A: R.301, W.324, D.327, E.331, R.359, D.571 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.359, A:D.571 Water bridges: A:D.327, A:D.327, A:E.331, A:E.331 GOL.21: 7 residues within 4Å: Chain A: R.545, R.599, K.605, T.607, L.608, M.609, S.610 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.545, A:R.599, A:K.605 Water bridges: A:R.545 GOL.22: 6 residues within 4Å: Chain A: Y.10, K.14, Y.40, L.41, R.44 Ligands: ACT.14 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.40, A:R.44 Water bridges: A:R.44

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

van Asselt, E.J. et al., High resolution crystal structures of the Escherichia coli lytic transglycosylase Slt70 and its complex with a peptidoglycan fragment. J.Mol.Biol. (1999)

Release Date

1999-08-31

Peptides

SOLUBLE LYTIC TRANSGLYCOSYLASE SLT70: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

SOLUBLE LYTIC TRANSGLYCOSYLASE SLT70

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