SMTL ID : 3hwe.1 (2 other biounits)

Crystal structure of Siderocalin (NGAL, Lipocalin 2) complexed with Fe-BisHaCam

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

monomer

Ligands

1 x FE: FE (III) ION(Non-functional Binders)

FE.1: 2 residues within 4Å: Ligands: RKS.2, RKS.3 No protein-ligand interaction detected (PLIP)

2 x RKS: methyl N~6~-acetyl-N~2~-[(2,3-dihydroxyphenyl)carbonyl]-N~6~-hydroxy-D-lysyl-N~6~-acetyl-N~6~-hydroxy-L-lysinate(Non-covalent)

RKS.2: 14 residues within 4Å: Chain A: L.56, A.60, I.61, Q.69, Y.72, R.92, Y.126, F.143, K.145, Y.152, F.153, K.154 Ligands: FE.1, RKS.3 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:A.60, A:R.92, A:F.143, A:K.145, A:Y.152, A:K.154, A:K.154 Hydrogen bonds: A:Q.69, A:D.97, A:K.145, A:K.145, A:Y.152, A:K.154 Salt bridges: A:K.154 RKS.3: 10 residues within 4Å: Chain A: W.99, R.101, L.114, Y.120, L.123, Y.126, K.145, K.154 Ligands: FE.1, RKS.2 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:W.99, A:W.99, A:W.99, A:R.101, A:L.114 Hydrogen bonds: A:K.145, A:K.154 pi-Stacking: A:W.99

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 4 residues within 4Å: Chain A: L.62, P.182, N.184, H.185 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.185 GOL.5: 3 residues within 4Å: Chain A: N.134, Q.137, H.138 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.134, A:Q.137

2 x NA: SODIUM ION(Non-functional Binders)

NA.6: 1 residues within 4Å: Chain A: K.95 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.95, A:K.95 NA.7: 1 residues within 4Å: Chain A: S.166 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.166

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Clifton, M.C. et al., Parsing the functional specificity of Siderocalin / Lipocalin 2 / NGAL for siderophores and related small-molecule ligands. To be Published

Release Date

2010-06-02

Peptides

Neutrophil gelatinase-associated lipocalin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Neutrophil gelatinase-associated lipocalin

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