SMTL ID : 3vfk.1

The structure of monodechloro-teicoplanin in complex with its ligand, using ubiquitin as a ligand carrier

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

monomer

Ligands

1 x GHP- 3MY- 3FG- GHP- GHP- OMX- 3FG: MonodeChloro- Teicoplanin A2-2(Non-covalent)

GHP-3MY-3FG-GHP-GHP-OMX-3FG.1: 7 residues within 4Å: Chain A: K.77, A.78, A.79 Ligands: GCS.2, T55.3, NAG.4, MAN.5 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.77

1 x GCS: 2-amino-2-deoxy-beta-D-glucopyranose(Non-covalent)

GCS.2: 7 residues within 4Å: Chain A: R.74, G.75, A.79 Ligands: GHP-3MY-3FG-GHP-GHP-OMX-3FG.1, GHP-3MY-3FG-GHP-GHP-OMX-3FG.1, GHP-3MY-3FG-GHP-GHP-OMX-3FG.1, T55.3 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.75

1 x T55: 8-METHYLNONANOIC ACID(Non-functional Binders)

T55.3: 3 residues within 4Å: Ligands: GHP-3MY-3FG-GHP-GHP-OMX-3FG.1, GHP-3MY-3FG-GHP-GHP-OMX-3FG.1, GCS.2 No protein-ligand interaction detected (PLIP)

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

NAG.4: 6 residues within 4Å: Chain A: R.42, R.72, L.73, G.75 Ligands: GHP-3MY-3FG-GHP-GHP-OMX-3FG.1, GHP-3MY-3FG-GHP-GHP-OMX-3FG.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.42, A:L.73, A:L.73, A:G.75

1 x MAN: alpha-D-mannopyranose(Non-functional Binders)

MAN.5: 4 residues within 4Å: Ligands: GHP-3MY-3FG-GHP-GHP-OMX-3FG.1, GHP-3MY-3FG-GHP-GHP-OMX-3FG.1, GHP-3MY-3FG-GHP-GHP-OMX-3FG.1, GHP-3MY-3FG-GHP-GHP-OMX-3FG.1 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Economou, N.J. et al., Structure of the complex between teicoplanin and a bacterial cell-wall peptide: use of a carrier-protein approach. Acta Crystallogr.,Sect.D (2013)

Release Date

2013-01-09

Peptides

ubiquitin, C-terminal fused by Cys-Lys-D-Ala-D-Ala: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

ubiquitin, C-terminal fused by Cys-Lys-D-Ala-D-Ala

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