SMTL ID : 4a6e.1

Crystal structure of human N-acetylserotonin methyltransferase (ASMT) in complex with SAM and N-acetylserotonin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 2 residues within 4Å: Chain A: E.267, H.271 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.267, A:H.271, H2O.33, H2O.47, H2O.48 ZN.11: 2 residues within 4Å: Chain B: E.267, H.271 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:E.267, B:H.271, H2O.82, H2O.96, H2O.97

2 x SAM: S-ADENOSYLMETHIONINE(Non-covalent)

SAM.2: 19 residues within 4Å: Chain A: F.143, Y.147, L.160, W.164, G.187, G.189, F.209, D.210, I.211, V.214, G.235, D.236, F.237, F.238, A.251, R.252, D.256, W.257 Ligands: ASE.3 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:Y.147, A:G.187, A:G.187, A:G.189, A:I.211, A:D.236, A:F.237 Water bridges: A:Y.147, A:Y.147 Salt bridges: A:R.252, A:D.256 pi-Stacking: A:F.143, A:F.237 SAM.12: 19 residues within 4Å: Chain B: F.143, Y.147, L.160, W.164, G.187, G.189, F.209, D.210, I.211, V.214, G.235, D.236, F.237, F.238, A.251, R.252, D.256, W.257 Ligands: ASE.13 13 PLIP interactions: 13 interactions with chain B Hydrogen bonds: B:Y.147, B:Y.147, B:G.187, B:G.187, B:G.189, B:I.211, B:D.236, B:D.236, B:F.237 Salt bridges: B:R.252, B:D.256 pi-Stacking: B:F.143, B:F.237

2 x ASE: N-ACETYL SEROTONIN(Non-covalent)

ASE.3: 14 residues within 4Å: Chain A: M.105, Y.108, F.156, L.160, R.252, H.255, D.256, Y.299, N.302, M.303, Q.306, T.307, Y.338 Ligands: SAM.2 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.160, A:Y.299, A:T.307 Hydrogen bonds: A:R.252, A:Y.299, A:N.302, A:Q.306 pi-Stacking: A:F.156 ASE.13: 14 residues within 4Å: Chain B: M.105, Y.108, F.156, L.160, R.252, H.255, D.256, Y.299, N.302, M.303, Q.306, T.307, Y.338 Ligands: SAM.12 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:L.160, B:Y.299, B:T.307 Hydrogen bonds: B:R.252, B:Y.299, B:N.302, B:Q.306 pi-Stacking: B:F.156

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

SO4.4: 3 residues within 4Å: Chain A: K.107, R.111, Q.155 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.155 Salt bridges: A:K.107, A:R.111 SO4.5: 4 residues within 4Å: Chain A: E.30, R.111 Chain B: A.121, R.125 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:E.30 Salt bridges: A:R.111, B:R.125 SO4.6: 3 residues within 4Å: Chain A: K.74, T.87, E.88 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.88 Salt bridges: A:K.74 SO4.7: 4 residues within 4Å: Chain A: H.318, R.327, D.328, F.329 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.322, A:R.327, A:D.328, A:F.329 Salt bridges: A:H.318 SO4.8: 3 residues within 4Å: Chain A: R.115, F.135, R.148 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.115, A:R.148 SO4.9: 2 residues within 4Å: Chain A: G.346, T.347 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.347 SO4.14: 3 residues within 4Å: Chain B: K.107, R.111, Q.155 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Q.155 Salt bridges: B:K.107, B:R.111 SO4.15: 4 residues within 4Å: Chain A: A.121, R.125 Chain B: E.30, R.111 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:E.30 Salt bridges: B:R.111, A:R.125 SO4.16: 3 residues within 4Å: Chain B: K.74, T.87, E.88 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.88 Salt bridges: B:K.74 SO4.17: 4 residues within 4Å: Chain B: H.318, R.327, D.328, F.329 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:S.322, B:R.327, B:D.328, B:F.329 Salt bridges: B:H.318 SO4.18: 3 residues within 4Å: Chain B: R.115, F.135, R.148 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:R.115, B:R.148 SO4.19: 2 residues within 4Å: Chain B: G.346, T.347 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.347

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.10: 4 residues within 4Å: Chain A: L.31, G.32, E.39, G.52 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.39 GOL.20: 4 residues within 4Å: Chain B: L.31, G.32, E.39, G.52 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.39

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Botros, H.G. et al., Crystal Structure and Functional Mapping of Human Asmt, the Last Enzyme of the Melatonin Synthesis Pathway. J.Pineal Res. (2013)

Release Date

2012-11-07

Peptides

HYDROXYINDOLE O-METHYLTRANSFERASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

HYDROXYINDOLE O-METHYLTRANSFERASE

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