SMTL ID : 1ya4.1

Crystal Structure of Human Liver Carboxylesterase 1 in complex with tamoxifen

Coordinates

PDB Format

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: 2 residues within 4Å: Chain A: N.59, T.61 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.59, A:T.61 NAG.7: 2 residues within 4Å: Chain B: N.59 Ligands: SIA.8 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:N.59 Hydrogen bonds: B:N.59 NAG.13: 3 residues within 4Å: Chain C: P.3, L.14, N.59 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.59

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

SIA.2: 6 residues within 4Å: Chain A: L.31, G.32, N.59, S.62, Y.63 Chain B: K.242 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:L.31, A:N.59, A:N.59, A:N.59, A:S.62, A:S.62 Water bridges: B:T.257 SIA.8: 7 residues within 4Å: Chain B: L.31, G.32, K.58, N.59, S.62 Chain C: K.242 Ligands: NAG.7 7 PLIP interactions: 1 interactions with chain C, 6 interactions with chain B Water bridges: C:K.242 Hydrogen bonds: B:N.59, B:N.59, B:S.62, B:S.62, B:S.62 Salt bridges: B:K.58 SIA.14: 7 residues within 4Å: Chain A: K.242 Chain C: L.31, G.32, K.58, N.59, S.62, P.64 7 PLIP interactions: 6 interactions with chain C, 1 interactions with chain A Hydrogen bonds: C:N.59, C:N.59, C:S.62, C:S.62, C:S.62, A:K.242 Salt bridges: C:K.58

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

SO4.3: 4 residues within 4Å: Chain A: H.264, R.267, Q.268 Chain C: G.41 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.268 Water bridges: A:R.267 Salt bridges: A:H.264, A:R.267 SO4.4: 5 residues within 4Å: Chain A: R.44, E.94, T.270, E.271 Chain B: H.264 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:R.44, A:E.94, A:E.271 Salt bridges: B:K.255, B:H.264 SO4.9: 3 residues within 4Å: Chain B: H.264, R.267, Q.268 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Q.268 Salt bridges: B:H.264, B:R.267 SO4.10: 6 residues within 4Å: Chain B: R.44, E.94, T.270, E.271 Chain C: K.255, H.264 5 PLIP interactions: 2 interactions with chain C, 3 interactions with chain B Salt bridges: C:K.255, C:H.264 Hydrogen bonds: B:R.44, B:E.94, B:E.271 SO4.15: 6 residues within 4Å: Chain A: H.264 Chain C: R.44, E.94, K.269, T.270, E.271 5 PLIP interactions: 3 interactions with chain C, 2 interactions with chain A Hydrogen bonds: C:K.269, C:E.271 Salt bridges: C:R.44, A:H.264 Water bridges: A:K.255 SO4.16: 3 residues within 4Å: Chain C: H.264, R.267, Q.268 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:Q.268 Salt bridges: C:H.264, C:R.267

6 x CTX: (Z)-2-[4-(1,2)-DIPHENYL-1-BUTENYL)-PHENOXY]-N,N-DIMETHYLETHANAMINE(Non-covalent)

CTX.5: 15 residues within 4Å: Chain A: A.73, L.77, F.81, G.122, G.123, S.201, F.283, L.284, S.285, P.297, L.298, L.342, M.343, L.367, H.447 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:L.77, A:F.81, A:L.284, A:L.284, A:P.297, A:L.298, A:L.342, A:L.342, A:L.367 pi-Stacking: A:H.447 CTX.6: 9 residues within 4Å: Chain A: W.337, P.340, M.341, L.347, S.348, G.350, K.393, L.397, P.440 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:P.340, A:M.341, A:L.347, A:L.397, A:P.440 pi-Cation interactions: A:K.393 CTX.11: 16 residues within 4Å: Chain B: L.77, F.81, G.122, G.123, S.201, V.234, L.284, S.285, P.297, L.298, L.338, I.339, L.342, M.343, L.367, H.447 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:L.77, B:F.81, B:V.234, B:L.284, B:L.284, B:L.284, B:P.297, B:L.298, B:L.338, B:I.339, B:L.342, B:L.342, B:L.367 pi-Stacking: B:H.447 CTX.12: 10 residues within 4Å: Chain B: W.337, P.340, M.341, Y.345, L.347, S.348, G.350, K.393, L.397, P.440 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:P.340, B:L.347, B:K.393, B:L.397, B:P.440 CTX.17: 16 residues within 4Å: Chain C: L.77, F.81, G.122, G.123, S.201, V.234, L.284, S.285, P.297, L.298, L.338, I.339, L.342, M.343, L.367, H.447 14 PLIP interactions: 14 interactions with chain C Hydrophobic interactions: C:L.77, C:F.81, C:V.234, C:L.284, C:L.284, C:L.284, C:P.297, C:L.298, C:L.338, C:I.339, C:I.339, C:L.342, C:L.367 pi-Stacking: C:H.447 CTX.18: 7 residues within 4Å: Chain C: G.336, W.337, P.340, L.347, S.348, G.350, K.393 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:P.340, C:L.347, C:K.393

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fleming, C.D. et al., Structural insights into drug processing by human carboxylesterase 1: tamoxifen, mevastatin, and inhibition by benzil. J.Mol.Biol. (2005)

Release Date

2005-08-02

Peptides

CES1 protein: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

CES1 protein

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