SMTL ID : 3d78.1 (2 other biounits)

Dimeric crystal structure of a pheromone binding protein mutant D35N, from apis mellifera, at pH 7.0

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-dimer

Ligands

3 x NBB: N-BUTYL-BENZENESULFONAMIDE(Non-covalent)

NBB.1: 10 residues within 4Å: Chain A: M.49, L.52, L.53, L.58, V.115, W.116, F.117, V.118, I.119 Ligands: EDO.3 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.52, A:L.52, A:L.53, A:L.58, A:W.116, A:I.119 Hydrogen bonds: A:F.117, A:I.119 NBB.7: 8 residues within 4Å: Chain B: M.49, L.52, L.53, V.115, W.116, F.117, V.118 Ligands: NBB.8 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:L.52, B:L.53, B:W.116, B:F.117 Hydrogen bonds: B:W.116 pi-Stacking: B:F.56 NBB.8: 11 residues within 4Å: Chain B: W.4, P.6, V.9, L.12, L.58, M.70, L.73, L.74, P.75, F.117 Ligands: NBB.7 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:V.9, B:L.12, B:L.58, B:L.73, B:L.74, B:F.117 Hydrogen bonds: B:L.73

6 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 4 residues within 4Å: Chain A: R.81, S.84, V.85, S.111 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.81, A:R.81 EDO.3: 7 residues within 4Å: Chain A: M.70, V.85, M.86, L.104, V.108, V.115 Ligands: NBB.1 No protein-ligand interaction detected (PLIP) EDO.4: 7 residues within 4Å: Chain A: W.4, P.6, V.9, L.73, L.74, P.75, F.117 No protein-ligand interaction detected (PLIP) EDO.5: 4 residues within 4Å: Chain A: M.21, S.22, G.25, T.26 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.25, A:T.26 EDO.6: 1 residues within 4Å: Chain A: Y.102 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.102 EDO.9: 1 residues within 4Å: Chain B: N.41 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.41 Water bridges: B:N.99, B:Y.102

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pesenti, M.E. et al., Queen bee pheromone binding protein pH-induced domain swapping favors pheromone release. J.Mol.Biol. (2009)

Release Date

2009-05-26

Peptides

Pheromone-binding protein ASP1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Pheromone-binding protein ASP1

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