SMTL ID : 3u0d.2 (3 other biounits)

The structure of human Siderocalin bound to the bacterial siderophore 2,3-DHBA

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.51 Å

Oligo State

monomer

Ligands

1 x FE: FE (III) ION(Non-covalent)

FE.1: 4 residues within 4Å: Chain A: Y.126 Ligands: DBH.2, DBH.3, DBH.4 No protein-ligand interaction detected (PLIP)

3 x DBH: 2,3-DIHYDROXY-BENZOIC ACID(Non-covalent)

DBH.2: 10 residues within 4Å: Chain A: W.99, R.101, L.114, Y.120, L.123, Y.126, K.145 Ligands: FE.1, DBH.3, DBH.4 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:L.114, A:L.114, A:Y.120, A:L.123 Hydrogen bonds: A:R.101, A:Y.126 Water bridges: A:K.145, A:K.145 Salt bridges: A:K.145 pi-Stacking: A:W.99 DBH.3: 10 residues within 4Å: Chain A: A.60, Y.126, F.143, K.145, Y.152, F.153, K.154 Ligands: FE.1, DBH.2, DBH.4 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:F.143, A:K.145, A:Y.152, A:K.154, A:K.154 Hydrogen bonds: A:Y.126, A:K.154 Salt bridges: A:K.145, A:K.154 pi-Cation interactions: A:K.145 DBH.4: 7 residues within 4Å: Chain A: S.88, R.92, W.99, K.154 Ligands: FE.1, DBH.2, DBH.3 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:K.154 Water bridges: A:R.92, A:R.92, A:R.101, A:K.145 Salt bridges: A:R.92 pi-Stacking: A:W.99

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 3 residues within 4Å: Chain A: T.74, S.88, Y.158 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Correnti, C. et al., Siderocalin/Lcn2/NGAL/24p3 does not drive apoptosis through gentisic acid mediated iron withdrawal in hematopoietic cell lines. Plos One (2012)

Release Date

2011-10-12

Peptides

Neutrophil gelatinase-associated lipocalin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Neutrophil gelatinase-associated lipocalin

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