SMTL ID : 7cvw.1

Crystal structure of Catechol o-methyl transferase (COMT) from Niastella koreensis

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.54 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: D.139, D.165, N.166 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.139, A:D.139, A:D.165, H2O.1, H2O.3 MG.4: 3 residues within 4Å: Chain B: D.139, D.165, N.166 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.139, B:D.139, B:D.165, H2O.4, H2O.6

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 8 residues within 4Å: Chain A: D.10, Q.45, Q.205, M.206, V.207 Chain B: I.203, L.204, Q.205 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:D.10, A:Q.45, A:Q.205, A:V.207, B:Q.205 GOL.5: 7 residues within 4Å: Chain A: I.203, L.204, Q.205 Chain B: D.10, Q.45, M.206, V.207 9 PLIP interactions: 8 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:D.10, B:Q.45, B:Q.205, B:V.207, A:Q.205 Water bridges: B:D.10, B:D.10, B:V.207, B:V.207

2 x SAH: S-ADENOSYL-L-HOMOCYSTEINE(Non-covalent)

SAH.3: 22 residues within 4Å: Chain A: I.39, S.40, V.41, E.63, G.65, T.66, L.67, Y.70, S.71, L.88, E.89, Y.90, D.91, H.94, G.116, K.117, A.118, F.137, D.139, A.140, D.141, Y.148 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:L.67 Hydrogen bonds: A:V.41, A:L.67, A:Y.70, A:S.71, A:S.71, A:Y.90, A:H.94, A:A.118, A:D.139, A:D.139, A:D.141, A:D.141, A:Y.148 Water bridges: A:G.69, A:I.119 SAH.6: 21 residues within 4Å: Chain B: I.39, S.40, V.41, E.63, G.65, T.66, L.67, Y.70, S.71, L.88, E.89, Y.90, H.94, G.116, K.117, A.118, F.137, D.139, A.140, D.141, Y.148 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:L.67 Hydrogen bonds: B:V.41, B:L.67, B:Y.70, B:S.71, B:S.71, B:Y.90, B:H.94, B:A.118, B:D.139, B:D.139, B:D.141, B:D.141, B:Y.148 Water bridges: B:G.69, B:I.119

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, B. et al., Structural and Biochemical analysis of FumaraseC from Mannheimia succiniciproducens. To Be Published

Release Date

2021-09-01

Peptides

O-methyltransferase family 3: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

O-methyltransferase family 3

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