SMTL ID : 6tp8.1 (1 other biounit)

Substrate protein interactions in the limbus region of the catalytic site of Candida antarctica Lipase B

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

homo-dimer

Ligands

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 3 residues within 4Å: Chain A: P.69, P.70, N.74 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 3 residues within 4Å: Chain B: P.69, P.70, N.74 No protein-ligand interaction detected (PLIP)

2 x DEP: DIETHYL PHOSPHONATE(Covalent)

DEP.3: 11 residues within 4Å: Chain A: G.39, T.40, W.104, S.105, Q.106, D.134, T.138, Q.157, I.189, H.224 Ligands: NTK.4 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:W.104, A:T.138, A:I.189 Hydrogen bonds: A:T.40, A:T.40, A:Q.106 Salt bridges: A:H.224 DEP.5: 11 residues within 4Å: Chain B: G.39, T.40, W.104, S.105, Q.106, D.134, T.138, Q.157, I.189, H.224 Ligands: NTK.4 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:T.138, B:I.189 Hydrogen bonds: B:T.40, B:T.40, B:Q.106 Salt bridges: B:H.224

1 x NTK: 2,3-di(butanoyloxy)propyl butanoate(Non-covalent)

NTK.4: 13 residues within 4Å: Chain A: E.188, I.189, L.278, A.279, A.282, I.285 Chain B: E.188, I.189, L.278, A.282, I.285 Ligands: DEP.3, DEP.5 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:L.278, A:A.282, A:I.285, B:A.282, B:I.285

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Silvestrini, L. et al., Principles of lipid-enzyme interactions in the limbus region of the catalytic site of Candida antarctica Lipase B. Int.J.Biol.Macromol. (2020)

Release Date

2020-05-20

Peptides

Lipase B: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Lipase B

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