SMTL ID : 2rkm.1

STRUCTURE OF OPPA COMPLEXED WITH LYS-LYS

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

2 x LYS: LYSINE(Non-covalent)

LYS.1: 9 residues within 4Å: Chain A: E.32, V.34, S.37, Y.109, W.416, C.417, A.418, D.419 Ligands: LYS.2 8 PLIP interactions: 8 interactions with chain A, Hydrophobic interactions: A:V.34 Hydrogen bonds: A:Y.109, A:C.417, A:D.419 Water bridges: A:A.418, A:D.419, A:L.504, A:N.506 LYS.2: 10 residues within 4Å: Chain A: E.32, G.33, V.34, W.397, R.404, G.415, W.416, N.436, T.438 Ligands: LYS.1 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:E.32, A:W.416 Hydrogen bonds: A:E.32, A:V.34, A:G.415, A:N.436 Water bridges: A:Y.274, A:Y.274, A:R.413

8 x IUM: URANYL (VI) ION(Non-covalent)(Non-functional Binders)

IUM.3: 1 residues within 4Å: Chain A: D.323 1 PLIP interactions: 1 interactions with chain A Water bridges: A:K.157 IUM.4: 1 residues within 4Å: Ligands: IUM.5 1 PLIP interactions: 1 interactions with chain A Water bridges: A:P.153 IUM.5: 3 residues within 4Å: Chain A: P.153, D.459 Ligands: IUM.4 2 PLIP interactions: 2 interactions with chain A Water bridges: A:R.462, A:R.462 IUM.6: 4 residues within 4Å: Chain A: V.230, E.251, D.369, K.373 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.373 IUM.7: 4 residues within 4Å: Chain A: K.281, F.361, D.362, D.410 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.281, A:D.362, A:D.362 Water bridges: A:D.410 IUM.8: 2 residues within 4Å: Chain A: H.517 Ligands: IUM.9 No protein-ligand interaction detected (PLIP) IUM.9: 2 residues within 4Å: Ligands: IUM.8, IUM.10 No protein-ligand interaction detected (PLIP) IUM.10: 3 residues within 4Å: Chain A: D.11, K.516 Ligands: IUM.9 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.516

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sleigh, S.H. et al., Peptide binding in OppA, the crystal structures of the periplasmic oligopeptide binding protein in the unliganded form and in complex with lysyllysine. Biochemistry (1997)

Release Date

1997-07-29

Peptides

OLIGO-PEPTIDE BINDING PROTEIN: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

OLIGO-PEPTIDE BINDING PROTEIN

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