SMTL ID : 1b42.1

VACCINIA METHYLTRANSFERASE VP39 COMPLEXED WITH M1ADE AND S-ADENOSYLHOMOCYSTEINE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

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

SAH.1: 21 residues within 4Å: Chain A: Q.39, L.42, Y.66, I.67, G.68, S.69, A.70, P.71, G.72, H.74, I.94, D.95, G.96, R.97, R.114, F.115, V.116, D.138, V.139, R.140, L.159 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:Q.39, A:Y.66, A:G.68, A:A.70, A:A.70, A:G.72, A:R.97, A:V.116, A:V.116, A:D.138, A:D.138, A:R.140 Salt bridges: A:H.74 pi-Stacking: A:F.115, A:F.115 SAH.3: 21 residues within 4Å: Chain B: Q.39, L.42, Y.66, I.67, G.68, S.69, A.70, P.71, G.72, H.74, I.94, D.95, G.96, R.97, R.114, F.115, V.116, D.138, V.139, R.140, L.159 14 PLIP interactions: 14 interactions with chain B Hydrogen bonds: B:Q.39, B:Y.66, B:G.68, B:A.70, B:A.70, B:G.72, B:R.97, B:V.116, B:V.116, B:D.138, B:R.140 Salt bridges: B:H.74 pi-Stacking: B:F.115, B:F.115

2 x M1A: 6-AMINO-1-METHYLPURINE(Non-covalent)

M1A.2: 6 residues within 4Å: Chain A: Y.22, F.180, D.182, Y.204, A.206, E.233 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.233 Water bridges: A:Y.22, A:Y.204 pi-Stacking: A:Y.22, A:F.180, A:F.180 M1A.4: 6 residues within 4Å: Chain B: Y.22, F.180, D.182, Y.204, A.206, E.233 5 PLIP interactions: 5 interactions with chain B Water bridges: B:Y.22, B:Y.204 pi-Stacking: B:Y.22, B:F.180, B:F.180

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hu, G. et al., mRNA cap recognition: dominant role of enhanced stacking interactions between methylated bases and protein aromatic side chains. Proc.Natl.Acad.Sci.USA (1999)

Release Date

1999-07-22

Peptides

VP39: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

VP39

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