SMTL ID : 2r9j.1

Ligand recognition in C-lobe: The crystal structure of the complex of lactoferrin C-lobe with nicotinamide at 2.5 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.55 Å

Oligo State

monomer

Ligands

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 3 residues within 4Å: Chain A: L.132, N.135, N.330 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.330 NAG-NAG.2: 9 residues within 4Å: Chain A: R.74, L.93, N.204, D.205, W.208, E.209, R.225, A.243, Q.244 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:W.208 Hydrogen bonds: A:R.74 Water bridges: A:R.225

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.3: 4 residues within 4Å: Chain A: S.24, G.25, N.27, L.276 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.27

2 x ZN: ZINC ION(Non-covalent)

ZN.4: 1 residues within 4Å: Chain A: H.247 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.247, H2O.6 ZN.5: 2 residues within 4Å: Chain A: G.312, E.318 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.318, A:E.318

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

FE.6: 6 residues within 4Å: Chain A: D.54, Y.92, R.122, Y.185, H.254 Ligands: CO3.7 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.54, A:Y.92, A:Y.185, A:H.254

1 x CO3: CARBONATE ION(Non-functional Binders)

CO3.7: 10 residues within 4Å: Chain A: D.54, Y.92, T.118, R.122, T.123, A.124, G.125, Y.185, H.254 Ligands: FE.6 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.118, A:A.124, A:G.125

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

SO4.8: 2 residues within 4Å: Chain A: R.229, R.237 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.229, A:R.237

1 x NCA: NICOTINAMIDE(Non-covalent)

NCA.9: 3 residues within 4Å: Chain A: P.314, E.318, Y.319 2 PLIP interactions: 2 interactions with chain A Water bridges: A:E.318, A:Y.319

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mir, R. et al., Ligand recognition in C-lobe: The crystal structure of the complex of lactoferrin C-lobe with nicotinamide at 2.5 A resolution. To be Published

Release Date

2007-10-09

Peptides

Lactotransferrin': A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Lactotransferrin'

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