SMTL ID : 7apn.1

Structure of Lipase TL from bulk agarose grown crystal

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

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

NAG.1: 2 residues within 4Å: Chain A: N.33, D.48 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.33 NAG.7: 3 residues within 4Å: Chain B: N.33, D.48 Ligands: MG.9 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.33 Water bridges: B:A.49

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 7 residues within 4Å: Chain A: R.160, L.185, T.186, Q.188, G.191, T.192, L.193 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.160, A:R.160, A:L.193, A:L.193 Water bridges: A:Q.188 GOL.3: 4 residues within 4Å: Chain A: L.93, N.94, F.95, F.211 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:F.95 Water bridges: A:L.93, A:F.95, A:D.96 GOL.8: 4 residues within 4Å: Chain B: K.74, H.135, D.137, Y.138 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:H.135

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.4: 3 residues within 4Å: Chain A: P.208, R.209, E.210 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.175, A:R.209, A:E.210 Water bridges: A:R.175, A:N.248 PO4.5: 5 residues within 4Å: Chain A: E.1, V.2, L.6, Y.220, K.237 2 PLIP interactions: 2 interactions with chain A Water bridges: A:K.237 Salt bridges: A:K.237

2 x MG: MAGNESIUM ION(Non-covalent)

MG.6: 3 residues within 4Å: Chain A: R.195, H.215, S.216 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.215, H2O.2 MG.9: 3 residues within 4Å: Chain B: E.45, A.47 Ligands: NAG.7 6 PLIP interactions: 2 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:E.45, B:A.47, H2O.10, H2O.12, H2O.14, H2O.15

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fernandez-Penas, R. et al., Production of Cross-Linked Lipase Crystals at a Preparative Scale. Cryst.Growth Des. (2021)

Release Date

2021-03-03

Peptides

Lipase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Lipase

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