SMTL ID : 7app.1

Structure of Lipase TL from capillary grown crystal in the presence of agarose

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

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

NAG.1: 4 residues within 4Å: Chain A: N.33, A.47, D.48 Ligands: NA.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.33, A:D.48 Water bridges: A:A.49 NAG.12: 2 residues within 4Å: Chain B: N.33, D.48 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.33 Water bridges: B:A.49

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

NA.2: 4 residues within 4Å: Chain A: V.44, E.45, A.47 Ligands: NAG.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.45, A:A.49 Water bridges: A:N.33 NA.13: 3 residues within 4Å: Chain B: V.44, E.45, A.47 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:V.44, B:A.49 NA.14: 2 residues within 4Å: Chain B: Q.188, G.191 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.188 Water bridges: B:G.191

15 x FMT: FORMIC ACID(Non-functional Binders)

FMT.3: 4 residues within 4Å: Chain A: T.192, L.193, P.218, Y.220 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.220 Water bridges: A:L.193, A:K.237 FMT.4: 4 residues within 4Å: Chain A: L.6, Q.9, R.139, Y.194 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.5, A:Q.9, A:R.139, A:R.139, A:Y.194 FMT.5: 5 residues within 4Å: Chain A: Q.9, F.13, N.73, L.75, R.139 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.139 Water bridges: A:Q.9, A:Q.9 FMT.6: 4 residues within 4Å: Chain A: Q.4, F.7, T.231, R.232 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.4, A:R.232, A:R.232 Water bridges: A:N.233 FMT.7: 2 residues within 4Å: Chain A: T.267, C.268 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.267, A:C.268 FMT.8: 1 residues within 4Å: Chain A: N.162 No protein-ligand interaction detected (PLIP) FMT.9: 1 residues within 4Å: Chain A: K.237 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.237, A:K.237 FMT.10: 4 residues within 4Å: Chain A: T.37, G.38 Chain B: D.254, P.256 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:G.38 Water bridges: A:N.39, A:N.39, B:D.254 FMT.11: 3 residues within 4Å: Chain A: N.39 Chain B: G.225, T.226 7 PLIP interactions: 4 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:N.39, B:T.226 Water bridges: A:N.39, A:N.39, A:N.39, B:T.226, B:T.226 FMT.15: 5 residues within 4Å: Chain B: T.192, L.193, P.218, Y.220, K.237 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:L.193, B:K.237 FMT.16: 2 residues within 4Å: Chain B: T.231, D.234 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.231 FMT.17: 3 residues within 4Å: Chain B: S.224, G.225, V.228 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.225 FMT.18: 3 residues within 4Å: Chain B: Q.9, L.75, R.139 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.139 FMT.19: 2 residues within 4Å: Chain B: R.209, S.214 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.209 Water bridges: B:R.179, B:R.179, B:S.214 FMT.20: 6 residues within 4Å: Chain B: N.94, F.95, D.96, H.110, D.111, G.112 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:D.96, B:D.96, B:D.111, B:G.112

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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