SMTL ID : 1v39.1

DC26 MUTANT OF VACCINIA VIRUS PROTEIN VP39 IN COMPLEX WITH S-ADENOSYLHOMOCYSTEINE AND M7G(5')PPPG

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

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

SAH.1: 19 residues within 4Å: Chain A: Q.54, L.57, Y.81, I.82, G.83, S.84, A.85, P.86, G.87, H.89, I.109, D.110, R.112, R.129, F.130, V.131, D.153, V.154, R.155 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:Q.54, A:Y.81, A:G.83, A:G.83, A:A.85, A:A.85, A:G.87, A:R.112, A:V.131, A:V.131, A:D.153, A:R.155 Salt bridges: A:H.89 pi-Stacking: A:F.130, A:F.130 SAH.3: 19 residues within 4Å: Chain B: Q.54, L.57, Y.81, I.82, G.83, S.84, A.85, P.86, G.87, H.89, I.109, D.110, R.112, R.129, F.130, V.131, D.153, V.154, R.155 13 PLIP interactions: 13 interactions with chain B Hydrogen bonds: B:Q.54, B:G.83, B:G.83, B:A.85, B:A.85, B:G.87, B:R.112, B:V.131, B:V.131, B:R.155 Salt bridges: B:H.89 pi-Stacking: B:F.130, B:F.130

2 x M7G: 7N-METHYL-8-HYDROGUANOSINE-5'-DIPHOSPHATE(Non-covalent)

M7G.2: 8 residues within 4Å: Chain A: Y.37, A.42, P.163, R.192, F.195, D.197, Y.219, E.248 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:E.248 Water bridges: A:Y.37, A:Y.37, A:Y.219, A:S.220 Salt bridges: A:R.192, A:D.197, A:E.248 pi-Stacking: A:Y.37, A:F.195, A:F.195 pi-Cation interactions: A:F.195 M7G.4: 8 residues within 4Å: Chain B: Y.37, A.42, P.163, R.192, F.195, D.197, Y.219, E.248 10 PLIP interactions: 10 interactions with chain B Water bridges: B:Y.37, B:Y.219, B:S.220 Salt bridges: B:R.192, B:D.197, B:E.248 pi-Stacking: B:Y.37, B:F.195, B:F.195 pi-Cation interactions: B:F.195

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hodel, A.E. et al., Specific protein recognition of an mRNA cap through its alkylated base. Nat.Struct.Biol. (1997)

Release Date

1997-09-17

Peptides

VP39: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

VP39

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