SMTL ID : 2dqy.1

Crystal structure of human carboxylesterase in complex with cholate and palmitate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

homo-trimer

Ligands

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

NAG.1: 3 residues within 4Å: Chain A: L.16, N.61 Ligands: SIA.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.61, A:N.61 NAG.8: 3 residues within 4Å: Chain B: L.16, N.61 Ligands: SIA.9 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.61 NAG.13: 3 residues within 4Å: Chain A: D.242 Chain C: L.16, N.61 5 PLIP interactions: 4 interactions with chain C, 1 interactions with chain A Hydrophobic interactions: C:L.16 Hydrogen bonds: C:N.61, A:D.242 Water bridges: C:N.61, 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, K.60, N.61, S.64 Chain B: K.244 Ligands: NAG.1 11 PLIP interactions: 9 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:L.33, A:N.61, A:N.61, A:N.61, A:T.63, A:S.64, A:S.64, B:K.244, B:K.244 Water bridges: A:K.60 Salt bridges: A:K.60 SIA.9: 7 residues within 4Å: Chain B: L.33, G.34, K.60, N.61, S.64 Chain C: K.244 Ligands: NAG.8 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain C Hydrogen bonds: B:L.33, B:N.61, B:S.64, B:S.64, C:K.244 Salt bridges: B:K.60 SIA.14: 8 residues within 4Å: Chain A: K.244, T.259 Chain C: L.33, G.34, K.60, N.61, S.64, P.66 9 PLIP interactions: 7 interactions with chain C, 2 interactions with chain A Hydrogen bonds: C:L.33, C:N.61, C:T.63, C:S.64, C:S.64, A:K.244 Water bridges: C:N.61 Salt bridges: C:K.60, A:K.244

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

SO4.3: 3 residues within 4Å: Chain A: A.262, H.266, R.269 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.266 Salt bridges: A:H.266, A:R.269 SO4.4: 4 residues within 4Å: Chain A: K.257 Chain C: T.272, E.273, E.274 4 PLIP interactions: 2 interactions with chain C, 2 interactions with chain A Hydrogen bonds: C:E.273, C:E.274 Water bridges: A:K.257 Salt bridges: A:K.257 SO4.5: 4 residues within 4Å: Chain A: L.42, P.44 Chain B: H.266, R.269 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:H.266, B:R.269 SO4.10: 7 residues within 4Å: Chain A: G.43, R.46, R.269, Q.270, K.271 Chain B: H.266, Q.270 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:G.43 Water bridges: A:R.46, A:R.46 Salt bridges: A:R.46, B:H.266 SO4.15: 3 residues within 4Å: Chain B: L.42 Chain C: H.266, R.269 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain B Salt bridges: C:H.266, C:R.269 Water bridges: B:P.40 SO4.16: 5 residues within 4Å: Chain B: E.96 Chain C: K.257, V.263, H.266, C.267 8 PLIP interactions: 7 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:V.263 Water bridges: C:K.257, C:K.257, C:K.257, C:K.257, B:E.273 Salt bridges: C:K.257, C:H.266

3 x CHD: CHOLIC ACID(Non-covalent)

CHD.6: 9 residues within 4Å: Chain A: G.338, W.339, L.349, S.350, G.352, K.395, L.399, M.440, P.442 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:K.395 Hydrogen bonds: A:G.338, A:W.339, A:K.395 CHD.11: 8 residues within 4Å: Chain B: G.338, W.339, L.349, S.350, G.352, K.395, M.440, P.442 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.338, B:K.395, B:K.395, B:M.440 CHD.17: 9 residues within 4Å: Chain C: G.338, W.339, L.349, S.350, K.395, L.399, M.440, P.442, V.445 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:L.349 Hydrogen bonds: C:G.338, C:W.339 Water bridges: C:K.395, C:K.395

3 x PLM: PALMITIC ACID(Non-covalent)

PLM.7: 14 residues within 4Å: Chain A: D.72, A.75, G.124, G.125, V.128, S.203, V.236, L.237, T.280, L.281, K.284, F.285, L.286, L.344 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:D.72, A:A.75, A:V.128, A:F.285, A:L.286, A:L.286, A:L.344 Hydrogen bonds: A:S.203 PLM.12: 9 residues within 4Å: Chain B: A.75, L.78, G.125, S.203, A.204, L.237, L.286, L.344, F.407 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:A.75, B:L.286, B:L.286, B:L.286, B:L.344, B:L.344, B:L.344 Hydrogen bonds: B:A.204 Water bridges: B:G.125 PLM.18: 7 residues within 4Å: Chain C: D.72, K.74, A.75, S.203, V.236, L.286, L.344 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:A.75, C:L.286, C:L.286, C:L.286, C:L.344

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

Related Entries With Identical Sequence