SMTL ID : 6gr0.2 (2 other biounits)

Petrobactin-binding engineered lipocalin in complex with gallium-petrobactin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

monomer

Ligands

3 x F8W: 4-[4-[3-[[3,4-bis(oxidanyl)phenyl]carbonylamino]propylamino]butylamino]-2-[2-[4-[3-[[3,4-bis(oxidanyl)phenyl]carbonylamino]propylamino]butylamino]-2-oxidanylidene-ethyl]-2-oxidanyl-4-oxidanylidene-butanoic acid(Non-covalent)

F8W.1: 16 residues within 4Å: Chain A: V.29, F.32, E.34, I.48, N.64, R.75, I.76, K.77, R.96, M.99, Y.102, F.119, K.128, W.130, T.132 Ligands: GA.2 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:V.29, A:F.32, A:R.75, A:K.77, A:Y.102, A:F.119, A:W.130, A:W.130 Hydrogen bonds: A:E.34, A:N.64, A:R.96, A:Y.102, A:K.128 Water bridges: A:R.75, A:I.76, A:K.77, A:R.96, A:T.121 Salt bridges: A:K.77, A:R.96 pi-Cation interactions: A:R.96 F8W.3: 9 residues within 4Å: Chain A: P.44, E.139, K.145, F.164, P.165, P.167 Ligands: F8W.4, GA.5, GA.6 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:P.44, A:F.164 Hydrogen bonds: A:F.164 Water bridges: A:K.145 Salt bridges: A:K.145 F8W.4: 6 residues within 4Å: Chain A: K.71, E.139, V.166, P.167 Ligands: F8W.3, GA.6 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.166 Hydrogen bonds: A:P.167 Water bridges: A:K.71

3 x GA: GALLIUM (III) ION(Non-covalent)

GA.2: 2 residues within 4Å: Chain A: K.77 Ligands: F8W.1 No protein-ligand interaction detected (PLIP) GA.5: 3 residues within 4Å: Chain A: E.139 Ligands: F8W.3, GA.6 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:E.139 GA.6: 4 residues within 4Å: Chain A: E.139 Ligands: F8W.3, F8W.4, GA.5 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:E.139

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dauner, M. et al., Reprogramming Human Siderocalin To Neutralize Petrobactin, the Essential Iron Scavenger of Anthrax Bacillus. Angew. Chem. Int. Ed. Engl. (2018)

Release Date

2018-08-15

Peptides

Neutrophil gelatinase-associated lipocalin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Neutrophil gelatinase-associated lipocalin

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