SMTL ID : 3gcz.1

Yokose virus Methyltransferase in complex with AdoMet

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

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

SAM.1: 18 residues within 4Å: Chain A: S.73, G.75, S.76, G.98, C.99, G.100, G.102, G.103, W.104, T.121, L.122, H.127, T.147, D.148, V.149, F.150, D.163, I.164 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:S.73, A:G.102, A:G.103, A:W.104, A:W.104, A:T.121, A:L.122, A:H.127, A:D.148, A:V.149 Water bridges: A:D.96, A:D.96, A:G.98, A:R.101, A:G.123, A:E.128, A:E.128 Salt bridges: A:D.163

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: K.32, P.169, S.170, I.171, A.172 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.32, A:K.32, A:S.170, A:I.171, A:A.172 GOL.3: 7 residues within 4Å: Chain A: K.31, L.34, N.35, F.42, S.167, S.168, P.169 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.35 GOL.4: 2 residues within 4Å: Chain A: I.141, R.142 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.142 Water bridges: A:F.143

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.5: 3 residues within 4Å: Chain A: C.49, L.257, R.261 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.261 SO4.6: 4 residues within 4Å: Chain A: G.38, K.39, T.40, Q.41 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.39, A:T.40, A:Q.41 SO4.7: 3 residues within 4Å: Chain A: R.55, R.59, R.101 4 PLIP interactions: 4 interactions with chain A Water bridges: A:R.74, A:R.74 Salt bridges: A:R.55, A:R.101

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bollati, M. et al., Crystal structure of a methyltransferase from a no-known-vector Flavivirus. Biochem.Biophys.Res.Commun. (2009)

Release Date

2009-03-24

Peptides

Polyprotein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Polyprotein