SMTL ID : 2dr0.1

Crystal structure of human carboxylesterase in complex with taurocholate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

homo-trimer

Ligands

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

NAG.1: 4 residues within 4Å: Chain A: N.61, T.63 Chain B: D.242 Ligands: SIA.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.63 Water bridges: A:N.61, A:N.61 NAG.7: 3 residues within 4Å: Chain B: L.16, N.61 Ligands: SIA.8 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.61 NAG.13: 4 residues within 4Å: Chain A: D.242 Chain C: P.5, L.16, N.61 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.61

3 x SIA: N-acetyl-alpha-neuraminic acid(Non-covalent)

SIA.2: 7 residues within 4Å: Chain A: L.33, G.34, N.61, S.64, Y.65 Chain B: K.244 Ligands: NAG.1 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:L.33, A:N.61, A:N.61, A:N.61, A:S.64, A:S.64, A:S.64 SIA.8: 8 residues within 4Å: Chain B: L.33, G.34, K.60, N.61, S.64, Y.100 Chain C: K.244 Ligands: NAG.7 10 PLIP interactions: 1 interactions with chain C, 9 interactions with chain B Hydrogen bonds: C:K.244, B:L.33, B:N.61, B:N.61, B:S.64 Water bridges: B:K.60, B:K.60, B:T.63, B:S.64 Salt bridges: B:K.60 SIA.14: 8 residues within 4Å: Chain A: K.244 Chain C: L.33, G.34, K.60, N.61, S.64, P.66, Y.100 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain A Hydrogen bonds: C:N.61, C:N.61, A:K.244 Salt bridges: C:K.60

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

SO4.3: 3 residues within 4Å: Chain A: H.266, R.269 Chain C: G.43 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:H.266, A:R.269 SO4.4: 6 residues within 4Å: Chain A: R.46, E.96, K.271, T.272, E.273 Chain B: H.266 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:E.273 Water bridges: A:G.43, A:R.46 Salt bridges: A:R.46, B:H.266 SO4.9: 2 residues within 4Å: Chain B: H.266, R.269 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Q.270 Salt bridges: B:H.266, B:R.269 SO4.10: 6 residues within 4Å: Chain B: R.46, E.96, T.272, E.273, E.274 Chain C: H.266 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain C Hydrogen bonds: B:E.273 Salt bridges: B:R.46, C:K.257, C:H.266 Water bridges: C:K.257 SO4.15: 7 residues within 4Å: Chain A: H.266 Chain C: R.46, E.96, K.271, T.272, E.273, E.274 6 PLIP interactions: 2 interactions with chain A, 4 interactions with chain C Water bridges: A:H.266, C:R.46, C:R.46 Salt bridges: A:H.266, C:R.46 Hydrogen bonds: C:E.273 SO4.16: 3 residues within 4Å: Chain C: H.266, R.269, Q.270 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:Q.270, B:L.42 Salt bridges: C:H.266, C:R.269

6 x TCH: TAUROCHOLIC ACID(Non-covalent)

TCH.5: 7 residues within 4Å: Chain A: G.338, W.339, L.349, S.350, G.352, K.395, V.445 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:K.395 Hydrogen bonds: A:G.338, A:K.395 TCH.6: 16 residues within 4Å: Chain A: D.72, K.74, A.75, L.79, G.124, G.125, V.128, S.203, T.234, L.237, L.286, I.341, L.344, M.406, F.407, H.449 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:A.75, A:L.79, A:L.79, A:V.128, A:L.237, A:L.237, A:L.286, A:L.286, A:I.341, A:L.344, A:F.407 Hydrogen bonds: A:A.75, A:G.124, A:S.203 Water bridges: A:L.286 TCH.11: 7 residues within 4Å: Chain B: G.338, W.339, L.349, S.350, G.352, K.395, V.445 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:K.395 Hydrogen bonds: B:G.338, B:K.395 TCH.12: 16 residues within 4Å: Chain B: L.79, G.124, G.125, S.203, A.204, S.229, G.230, T.234, V.236, L.237, L.286, I.341, L.344, M.406, F.407, H.449 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:L.79, B:V.236, B:L.237, B:L.286, B:I.341, B:I.341, B:L.344, B:F.407, B:F.407 Hydrogen bonds: B:G.124, B:G.125, B:S.203, B:S.203, B:G.230 Water bridges: B:L.344, B:S.346 TCH.17: 7 residues within 4Å: Chain C: G.338, W.339, L.349, S.350, G.352, K.395, V.445 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:K.395 Hydrogen bonds: C:G.338, C:K.395 TCH.18: 14 residues within 4Å: Chain C: D.72, A.75, G.124, G.125, V.128, S.203, T.234, V.236, L.237, L.286, I.341, L.344, M.406, F.407 11 PLIP interactions: 11 interactions with chain C Hydrophobic interactions: C:V.128, C:V.236, C:V.236, C:L.237, C:L.286, C:L.286, C:I.341 Hydrogen bonds: C:A.75, C:G.124, C:S.203, C:T.234

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bencharit, S. et al., Multisite promiscuity in the processing of endogenous substrates by human carboxylesterase 1. J.Mol.Biol. (2006)

Release Date

2006-08-29

Peptides

Liver carboxylesterase 1: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Liver carboxylesterase 1

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