SMTL ID : 2px1.1

crystal structure of the complex of bovine lactoferrin C-lobe with Ribose at 2.5 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

monomer

Ligands

1 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: 4 residues within 4Å: Chain A: S.24, G.25, N.27, L.276 No protein-ligand interaction detected (PLIP)

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

NAG-NAG-BMA-BMA.2: 7 residues within 4Å: Chain A: G.131, L.132, N.135, E.323, T.326, A.327, N.330 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.323, A:E.323, A:T.326, A:N.330

1 x NAG- NDG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-alpha-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NDG-BMA.3: 8 residues within 4Å: Chain A: K.75, L.93, N.204, D.205, W.208, E.209, A.243, Q.244 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.209, A:Q.244, A:Q.244 Water bridges: A:A.243, A:S.77

2 x RIP: beta-D-ribopyranose(Non-covalent)

RIP.4: 6 residues within 4Å: Chain A: T.89, V.250, P.252, E.318, Y.319, L.320 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.89, A:E.318, A:Y.319, A:L.320 RIP.5: 6 residues within 4Å: Chain A: D.37, T.60, D.121, K.332, S.335, F.345 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.37, A:D.37, A:D.121, A:S.335 Salt bridges: A:K.332

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

FE.6: 5 residues within 4Å: Chain A: D.54, Y.92, 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 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.118, A:R.122

2 x ZN: ZINC ION(Non-covalent)

ZN.8: 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.9: 1 residues within 4Å: Chain A: H.247 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.247

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

SO4.10: 2 residues within 4Å: Chain A: R.229, R.237 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.237 Salt bridges: A:R.229, A:R.237

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mir, R. et al., crystal structure of the complex of bovine lactoferrin C-lobe with Ribose at 2.5 A resolution. To be Published

Release Date

2007-05-29

Peptides

Lactotransferrin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Lactotransferrin

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