SMTL ID : 3bfb.2 (1 other biounit)

Crystal structure of a pheromone binding protein from Apis mellifera in complex with the 9-keto-2(E)-decenoic acid

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

homo-dimer

Ligands

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 1 residues within 4Å: Ligands: CL.5 Ligand excluded by PLIP CL.5: 1 residues within 4Å: Ligands: CL.1 Ligand excluded by PLIP

2 x 9OD: (2Z)-9-oxodec-2-enoic acid(Non-covalent)

9OD.2: 11 residues within 4Å: Chain A: V.9, L.12, V.13, L.52, L.53, F.56, L.58, L.73, F.117, V.118, I.119 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:L.12, A:V.13, A:L.52, A:L.52, A:L.53, A:F.56, A:F.56, A:F.56, A:L.58, A:L.73, A:V.118 Hydrogen bonds: A:I.119 9OD.6: 11 residues within 4Å: Chain B: V.9, L.12, V.13, L.52, L.53, F.56, L.58, L.73, F.117, V.118, I.119 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:L.12, B:V.13, B:L.52, B:L.52, B:L.53, B:F.56, B:F.56, B:F.56, B:L.58, B:L.73, B:V.118 Hydrogen bonds: B:I.119

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: W.4, V.108, V.115, W.116, F.117 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:F.117, A:F.117 GOL.4: 4 residues within 4Å: Chain A: D.3, W.4, V.115, F.117 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.3, A:W.4, A:W.4 GOL.7: 5 residues within 4Å: Chain B: W.4, V.108, V.115, W.116, F.117 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:F.117, B:F.117 GOL.8: 4 residues within 4Å: Chain B: D.3, W.4, V.115, F.117 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:W.4, B:W.4

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pesenti, M.E. et al., Structural basis of the honey bee PBP pheromone and pH-induced conformational change. J.Mol.Biol. (2008)

Release Date

2008-06-10

Peptides

Pheromone-binding protein ASP1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Pheromone-binding protein ASP1

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