SMTL ID : 2px8.2 (1 other biounit)

Crystal structure of the Murray Valley Encephalitis Virus NS5 2'-O Methyltransferase domain in complex with SAH and 7M-GTP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

monomer

Ligands

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 2 residues within 4Å: Chain A: E.14, N.17 Ligand excluded by PLIP

2 x MGT: 7N-METHYL-8-HYDROGUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

MGT.2: 14 residues within 4Å: Chain A: K.13, L.16, N.17, M.19, K.21, F.24, R.28, S.150, S.151, P.152, R.213, S.215, N.216 Ligands: GOL.6 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:K.13, A:K.13, A:M.19, A:M.19, A:M.19, A:R.28, A:S.150, A:S.150, A:S.215, A:N.216 Water bridges: A:R.213, A:R.213 Salt bridges: A:R.28, A:R.28, A:R.213 pi-Stacking: A:F.24, A:F.24 MGT.3: 4 residues within 4Å: Chain A: K.21, E.22, F.25, K.29 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.29, A:K.29 Water bridges: A:R.28 pi-Stacking: A:F.25, A:F.25

1 x 3PO: TRIPHOSPHATE(Non-covalent)

3PO.4: 6 residues within 4Å: Chain A: R.37, R.41, V.55, S.56, R.57, R.84 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:R.57 Water bridges: A:R.41, A:R.213 Salt bridges: A:R.37, A:R.41, A:R.41, A:R.84, A:R.84, A:R.84

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

SAH.5: 20 residues within 4Å: Chain A: S.56, G.58, T.59, G.81, C.82, G.83, G.85, G.86, W.87, T.104, K.105, H.110, E.111, V.130, D.131, V.132, F.133, D.146, I.147, E.149 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:S.56, A:C.82, A:G.85, A:G.86, A:W.87, A:W.87, A:T.104, A:E.111, A:D.131, A:D.131, A:V.132 Water bridges: A:R.84

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 3 residues within 4Å: Chain A: N.17, K.21 Ligands: MGT.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.17, A:K.21

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Assenberg, R. et al., Crystal structure of the Murray Valley encephalitis virus NS5 methyltransferase domain in complex with cap analogues. J.Gen.Virol. (2007)

Release Date

2007-05-29

Peptides

Genome polyprotein [Contains: Capsid protein C (Core protein); Envelope protein M (Matrix protein); Major envelope protein E; Non-structural protein 1 (NS1); Non-structural protein 2A (NS2A); Flavivirin protease NS2B regulatory subunit; Flavivirin protease NS3 catalytic subunit; Non-structural protein 4A (NS4A); Non-structural protein 4B (NS4B); RNA-directed RNA polymerase (EC 2.7.7.48) (NS5)]: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Genome polyprotein [Contains: Capsid protein C (Core protein); Envelope protein M (Matrix protein); Major envelope protein E; Non-structural protein 1 (NS1); Non-structural protein 2A (NS2A); Flavivirin protease NS2B regulatory subunit; Flavivirin protease NS3 catalytic subunit; Non-structural protein 4A (NS4A); Non-structural protein 4B (NS4B); RNA-directed RNA polymerase (EC 2.7.7.48) (NS5)]

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