SMTL ID : 2qje.1

Crystal structure of the complex of Bovine C-lobe with Amygdalin at 2.3A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

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

NAG-NAG-BMA.1: 7 residues within 4Å: Chain A: G.131, L.132, N.135, E.323, T.326, A.327, N.330 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.330 NAG-NAG-BMA.2: 8 residues within 4Å: Chain A: S.77, L.93, N.204, D.205, W.208, R.225, A.243, Q.244 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.77 Water bridges: A:R.225

1 x TVY- Z8T: beta-L-glucopyranose-(1-6)-(1S)-2-amino-1-phenylethyl alpha-D-mannopyranoside(Non-covalent)

TVY-Z8T.3: 9 residues within 4Å: Chain A: H.79, P.88, T.89, E.90, L.310, G.311, E.318, Y.319, G.321 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.89, A:T.89, A:H.79, A:P.88

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

NAG.4: 6 residues within 4Å: Chain A: Q.23, S.24, N.27, H.272, Q.273, L.276 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.27, A:Q.273

2 x ZN: ZINC ION(Non-covalent)

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 ZN.6: 1 residues within 4Å: Chain A: H.247 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.247, H2O.7, H2O.9

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

FE.7: 5 residues within 4Å: Chain A: D.54, Y.92, Y.185, H.254 Ligands: CO3.9 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.54, A:Y.92, A:Y.185, A:H.254

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

SO4.8: 3 residues within 4Å: Chain A: K.100, R.229, R.237 4 PLIP interactions: 4 interactions with chain A Water bridges: A:G.104 Salt bridges: A:K.100, A:R.229, A:R.237

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

CO3.9: 9 residues within 4Å: Chain A: D.54, Y.92, T.118, R.122, T.123, A.124, G.125, Y.185 Ligands: FE.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.118, A:R.122

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mir, R. et al., Crystal structure of the complex of Bovine C-lobe with Amygdalin at 2.3A resolution. To be Published

Release Date

2008-06-24

Peptides

Lactotransferrin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Lactotransferrin

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