SMTL ID : 6wm6.1

Periplasmic EDTA-binding protein EppA, tetragonal

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.42 Å

Oligo State

monomer

Ligands

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

SO4.1: 6 residues within 4Å: Chain A: R.56, N.70, A.71, R.74, Q.278, Y.460 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:A.71, A:Y.460 Water bridges: A:R.56, A:R.56, A:R.74, A:R.74, A:Q.278, A:Q.278, A:Q.549, A:Q.549 Salt bridges: A:R.56 SO4.2: 6 residues within 4Å: Chain A: N.69, Y.155, S.462, K.470, Q.481, Q.549 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:N.69, A:S.462, A:Q.481, A:Q.549 Water bridges: A:N.69, A:N.152, A:N.152, A:N.152, A:S.462, A:Q.464, A:Q.464, A:K.470, A:K.470 Salt bridges: A:K.470 SO4.3: 5 residues within 4Å: Chain A: R.143, A.153, S.154, Y.155, Q.473 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:S.154, A:Y.155, A:D.158, A:Q.473 Water bridges: A:R.143, A:R.143, A:G.156 Salt bridges: A:R.143

7 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 9 residues within 4Å: Chain A: F.91, P.302, S.303, A.304, L.357, N.359, Q.529, P.547, N.548 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.359, A:P.547 Water bridges: A:F.91 EDO.5: 7 residues within 4Å: Chain A: K.94, M.95, N.96, T.97, D.98, E.558 Ligands: EDO.10 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.94, A:M.95, A:T.97 Water bridges: A:E.558, A:E.558 EDO.6: 8 residues within 4Å: Chain A: L.78, P.79, P.221, A.553, Y.554, N.555, T.556, A.557 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:A.553, A:T.556, A:T.556, A:A.557 EDO.7: 8 residues within 4Å: Chain A: F.52, A.53, V.54, T.55, A.71, V.72, T.75, Y.276 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.55, A:A.71 Water bridges: A:A.53, A:Y.276, A:Q.278 EDO.8: 11 residues within 4Å: Chain A: V.87, F.91, L.93, M.188, Q.463, Q.464, V.465, F.466, N.548, Q.549, L.550 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.463, A:V.465 Water bridges: A:Q.464, A:F.466 EDO.9: 10 residues within 4Å: Chain A: L.105, T.108, Q.111, P.179, F.180, L.181, W.183, A.500, A.501, S.502 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:F.180, A:A.500 EDO.10: 3 residues within 4Å: Chain A: K.94, T.97 Ligands: EDO.5 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.94

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lewis, K.M. et al., The Structural Basis of the Binding of Various Aminopolycarboxylates by the Periplasmic EDTA-Binding Protein EppA from Chelativorans sp. BNC1. Int J Mol Sci (2020)

Release Date

2020-11-18

Peptides

Extracellular solute-binding protein, family 5: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Extracellular solute-binding protein, family 5

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