SMTL ID : 6qi7.1

Engineered beta-lactoglobulin: variant L39Y in complex with endogenous ligand

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-dimer

Ligands

2 x PLM: PALMITIC ACID(Non-covalent)

PLM.1: 12 residues within 4Å: Chain A: V.41, L.54, I.56, E.62, K.69, I.71, I.84, V.92, V.94, L.103, F.105, M.107 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:V.41, A:L.54, A:I.56, A:K.69, A:I.71, A:I.84, A:V.92, A:V.94, A:L.103, A:F.105, A:F.105 Hydrogen bonds: A:E.62 PLM.5: 12 residues within 4Å: Chain B: V.41, L.54, I.56, E.62, K.69, I.71, I.84, V.92, V.94, L.103, F.105, M.107 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:V.41, B:L.54, B:I.56, B:K.69, B:I.71, B:I.84, B:V.92, B:V.94, B:L.103, B:F.105, B:F.105 Hydrogen bonds: B:E.62, B:E.62

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

EDO.2: 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 EDO.3: 4 residues within 4Å: Chain A: V.128, D.129, D.130, E.131 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.130, A:E.131 EDO.4: 3 residues within 4Å: Chain A: E.65, A.67, Q.68 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.65 EDO.6: 3 residues within 4Å: Chain B: T.76, K.77, K.83 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.77, B:K.83 EDO.7: 4 residues within 4Å: Chain B: V.128, D.129, D.130, E.131 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.130, B:E.131 EDO.8: 3 residues within 4Å: Chain B: E.65, A.67, Q.68 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.65, B:E.65

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bonarek, P. et al., Structure-based design approach to rational site-directed mutagenesis of beta-lactoglobulin. J.Struct.Biol. (2020)

Release Date

2019-01-30

Peptides

Beta-lactoglobulin: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Beta-lactoglobulin