SMTL ID : 5p9w.1

rat catechol O-methyltransferase in complex with 4'-fluoro-4,5-dihydroxy-N-{[(1R,2R)-2-{(2S,4R,5R)-4-hydroxy-5-[6-(methylamino)-9H-purin-9-yl]oxolan-2-yl}cyclopropyl]methyl}[1,1'-biphenyl]-3-carboxamide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.43 Å

Oligo State

monomer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 5 residues within 4Å: Chain A: D.141, K.144, D.169, N.170 Ligands: 7JN.4 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.141, A:D.169, H2O.1

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 3 residues within 4Å: Chain A: D.44, A.45, Y.200 Ligand excluded by PLIP CL.3: 5 residues within 4Å: Chain A: N.41, V.42, Y.71, S.72, D.141 Ligand excluded by PLIP

1 x 7JN: 4'-fluoro-4,5-dihydroxy-N-{[(1R,2R)-2-{(2S,4R,5R)-4-hydroxy-5-[6-(methylamino)-9H-purin-9-yl]oxolan-2-yl}cyclopropyl]methyl}[1,1'-biphenyl]-3-carboxamide(Non-covalent)

7JN.4: 25 residues within 4Å: Chain A: W.38, M.40, M.89, E.90, M.91, N.92, Y.95, G.117, A.118, S.119, Q.120, D.141, H.142, W.143, K.144, R.146, D.169, N.170, V.173, P.174, L.198, E.199 Ligands: MG.1, D1D.8, NHE.9 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:W.143, A:W.143, A:V.173, A:P.174, A:L.198, A:L.198 Hydrogen bonds: A:M.91, A:N.92, A:S.119, A:S.119, A:D.141, A:D.141, A:W.143, A:K.144, A:N.170 Water bridges: A:M.40, A:N.41, A:Y.68, A:N.92, A:Y.95, A:Q.120 pi-Stacking: A:W.38

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

SO4.5: 4 residues within 4Å: Chain A: P.82, G.83, R.85, K.111 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.83 Water bridges: A:A.84 Salt bridges: A:R.85, A:K.111 SO4.6: 3 residues within 4Å: Chain A: W.143, K.144, D.145 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.144, A:D.145 SO4.7: 4 residues within 4Å: Chain A: D.3, T.4, K.5, R.8 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.5 Salt bridges: A:R.8

1 x D1D: (4S,5S)-1,2-DITHIANE-4,5-DIOL(Non-covalent)

D1D.8: 5 residues within 4Å: Chain A: W.38, L.198, M.201 Ligands: 7JN.4, NHE.9 No protein-ligand interaction detected (PLIP)

1 x NHE: 2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID(Non-covalent)

NHE.9: 5 residues within 4Å: Chain A: E.37, W.38, M.201 Ligands: 7JN.4, D1D.8 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:W.38, A:W.38 Hydrogen bonds: A:W.38 Water bridges: A:K.5

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lerner, C. et al., Crystal Structure of a COMT complex. To be published

Release Date

2017-11-22

Peptides

Catechol O-methyltransferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Catechol O-methyltransferase

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