SMTL ID : 7q2n.1

Beta-lactoglobulin mutant FAF (I56F/L39A/M107F) in complex with desipramine (FAF-DSM)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

4 x DSM: 3-(10,11-DIHYDRO-5H-DIBENZO[B,F]AZEPIN-5-YL)-N-METHYLPROPAN-1-AMINE(Non-covalent)

DSM.1: 9 residues within 4Å: Chain A: V.41, L.58, Q.59, K.60, E.62, A.67, Q.68, K.69, I.71 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:V.41, A:L.58, A:K.60, A:K.60, A:A.67, A:K.69, A:K.69, A:I.71 Hydrogen bonds: A:E.62 DSM.2: 10 residues within 4Å: Chain A: P.38, V.41, I.84, N.90, F.107, E.108, N.109, S.116, L.117, A.118 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:V.41, A:I.84, A:F.107, A:N.109, A:A.118 Water bridges: A:N.90, A:N.109 pi-Stacking: A:F.107 DSM.4: 11 residues within 4Å: Chain A: L.143, M.145, H.146, I.147, R.148 Chain B: L.133, F.136, D.137, R.148, L.149, S.150 7 PLIP interactions: 5 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:L.133, B:F.136, B:D.137, B:R.148, B:R.148, A:M.145, A:R.148 DSM.8: 8 residues within 4Å: Chain B: L.31, P.38, N.90, F.107, E.108, N.109, S.116, A.118 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:L.31, B:P.38, B:F.107, B:N.109, B:A.118 pi-Stacking: B:F.107

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: T.4, V.81, K.91, L.93, E.108 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.4, A:T.4, A:E.108

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

CL.5: 5 residues within 4Å: Chain A: R.148, L.149, S.150 Chain B: H.146, I.147 Ligand excluded by PLIP

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

EDO.6: 3 residues within 4Å: Chain A: T.76, K.77, K.83 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.77, A:K.83

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

SO4.7: 4 residues within 4Å: Chain A: A.34, Q.35, S.36, W.61 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.35, A:S.36, A:S.36 SO4.9: 3 residues within 4Å: Chain B: W.61, G.64, H.161 2 PLIP interactions: 2 interactions with chain B Water bridges: B:Q.35 Salt bridges: B:H.161

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Loch, J.I. et al., New ligand-binding sites identified in the crystal structures of [beta]-lactoglobulin complexes with desipramine. Iucrj (2022)

Release Date

2022-05-11

Peptides

Beta-lactoglobulin: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

B
BBB

Beta-lactoglobulin

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