SMTL ID : 2eg5.1 (1 other biounit)

The structure of xanthosine methyltransferase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

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

SAH.1: 17 residues within 4Å: Chain A: Y.18, N.25, L.29, G.61, A.63, N.100, D.101, L.102, G.139, S.140, F.141, Y.142, C.157, Y.158, C.159, W.162 Ligands: XTS.2 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:Y.158 Hydrogen bonds: A:Y.18, A:G.61, A:A.63, A:L.102, A:S.140, A:F.141 Water bridges: A:C.157 pi-Stacking: A:F.141 SAH.3: 18 residues within 4Å: Chain B: Y.18, N.25, L.29, G.61, A.63, N.67, N.100, D.101, L.102, G.139, S.140, F.141, Y.142, C.157, Y.158, C.159, W.162 Ligands: XTS.4 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:Y.158 Hydrogen bonds: B:Y.18, B:G.61, B:A.63, B:L.102, B:S.140, B:F.141 pi-Stacking: B:F.141

2 x XTS: 9-[(2R,3R,4S,5R)-3,4-DIHYDROXY-5-(HYDROXYMETHYL)OXOLAN-2-YL]-3H-PURINE-2,6-DIONE(Non-covalent)

XTS.2: 13 residues within 4Å: Chain A: N.21, S.22, Y.24, N.25, Y.158, Q.161, W.162, I.227, S.316, V.320, Y.321, Y.356 Ligands: SAH.1 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:Y.18, A:S.22, A:Y.24, A:N.25, A:Q.161, A:S.316, A:S.316, A:Y.321, A:Y.321, A:Y.356, A:Y.356 pi-Stacking: A:Y.158 XTS.4: 14 residues within 4Å: Chain B: Y.18, N.21, S.22, Y.24, N.25, Y.158, Q.161, W.162, S.316, V.317, V.320, Y.321, Y.356 Ligands: SAH.3 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:Y.18, B:S.22, B:Y.24, B:N.25, B:Q.161, B:Y.321, B:Y.321, B:Y.356, B:Y.356 pi-Stacking: B:Y.158

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

McCarthy, A.A. et al., The structure of two N-methyltransferases from the caffeine biosynthetic pathway. Plant Physiol. (2007)

Release Date

2007-05-01

Peptides

Xanthosine methyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Xanthosine methyltransferase

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