SMTL ID : 2dm5.1

Thermodynamic Penalty Arising From Burial of a Ligand Polar Group Within a Hydrophobic Pocket of a Protein Receptor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

4 x CD: CADMIUM ION(Non-covalent)

CD.1: 1 residues within 4Å: Chain A: E.151 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.151, A:E.151, H2O.160, H2O.162, H2O.164 CD.2: 1 residues within 4Å: Chain A: E.25 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.25, A:E.25, H2O.103, H2O.163 CD.3: 3 residues within 4Å: Chain A: T.103, H.116 Ligands: CD.4 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.116, H2O.14, H2O.82 CD.4: 2 residues within 4Å: Chain A: H.153 Ligands: CD.3 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.153, H2O.30, H2O.82

1 x ODI: OCTANE-1,8-DIOL(Non-covalent)

ODI.5: 10 residues within 4Å: Chain A: L.36, F.50, L.52, I.57, F.68, F.102, A.115, L.117, L.128, Y.132 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.50, A:L.52, A:F.68, A:A.115, A:L.117, A:Y.132 Water bridges: A:L.52

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Barratt, E. et al., Thermodynamic penalty arising from burial of a ligand polar group within a hydrophobic pocket of a protein receptor. J.Mol.Biol. (2006)

Release Date

2006-10-17

Peptides

Major Urinary Protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Major Urinary Protein

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