SMTL ID : 3bwy.1

Crystal Structure of Human 108M Catechol O-methyltransferase bound with S-adenosylmethionine and inhibitor dinitrocatechol

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.30 Å

Oligo State

monomer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 6 residues within 4Å: Chain A: D.140, K.143, D.168, N.169 Ligands: SAM.2, DNC.3 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.140, A:D.168, H2O.1

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

SAM.2: 23 residues within 4Å: Chain A: M.39, N.40, V.41, E.63, G.65, A.66, Y.67, Y.70, S.71, I.88, E.89, I.90, G.116, A.117, S.118, Q.119, F.138, D.140, H.141, W.142, R.145 Ligands: MG.1, DNC.3 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:Y.67 Hydrogen bonds: A:N.40, A:V.41, A:E.63, A:A.66, A:Y.67, A:Y.70, A:S.71, A:S.71, A:I.90, A:S.118, A:Q.119, A:D.140, A:W.142 Water bridges: A:G.69, A:A.72, A:Q.119 Salt bridges: A:D.140 pi-Stacking: A:H.141, A:W.142

1 x DNC: 3,5-DINITROCATECHOL(Non-covalent)

DNC.3: 13 residues within 4Å: Chain A: W.37, M.39, D.140, H.141, W.142, K.143, D.168, N.169, P.173, L.197, E.198 Ligands: MG.1, SAM.2 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:W.37, A:P.173 Hydrogen bonds: A:D.140, A:K.143, A:K.143, A:N.169

3 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.4: 4 residues within 4Å: Chain A: A.51, V.52, E.55, Y.193 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.52, A:Y.193 Water bridges: A:E.55 MPD.5: 3 residues within 4Å: Chain A: S.59, D.135, R.160 1 PLIP interactions: 1 interactions with chain A Water bridges: A:R.160 MPD.6: 1 residues within 4Å: Chain A: K.161 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:K.161 Hydrogen bonds: A:K.161

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rutherford, K. et al., Crystal structures of human 108V and 108M catechol O-methyltransferase. J.Mol.Biol. (2008)

Release Date

2008-06-03

Peptides

COMT protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

COMT protein