SMTL ID : 8bxu.1

Crystal structure of Odorant Binding Protein 5 from Anopheles gambiae (AgamOBP5) with MPD (2-Methyl-2,4-pentanediol)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.35 Å

Oligo State

monomer

Ligands

3 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.1: 9 residues within 4Å: Chain A: A.51, A.54, T.56, I.63, T.105, T.109, L.112, F.122 Ligands: MPD.2 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.63, A:F.122 MPD.2: 7 residues within 4Å: Chain A: M.72, M.80, V.119, F.120, L.121 Ligands: MPD.1, MPD.3 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.121, A:L.121 MPD.3: 8 residues within 4Å: Chain A: M.11, M.14, T.56, Q.71, M.72, M.75, L.76 Ligands: MPD.2 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:T.56, A:Q.71, A:M.75

1 x NA: SODIUM ION(Non-functional Binders)

NA.4: 2 residues within 4Å: Chain A: E.86, Y.115 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.86, A:E.86, A:Y.115

1 x ETX: 2-ETHOXYETHANOL(Non-covalent)

ETX.5: 3 residues within 4Å: Chain A: D.12, R.15, R.33 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.15, A:R.33, A:R.33

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liggri, P.G.V. et al., The structure of AgamOBP5 in complex with the natural insect repellents Carvacrol and Thymol: Crystallographic, fluorescence and thermodynamic binding studies. Int.J.Biol.Macromol. (2023)

Release Date

2023-03-22

Peptides

Odorant binding protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

Odorant binding protein

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