SMTL ID : 7v1f.1

Crystal structure of Omsk hemorrhagic fever virus NS5 MTase (in complex with SAM and GTP)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

GTP.1: 13 residues within 4Å: Chain A: K.8, L.11, N.12, C.14, K.16, F.19, R.23, S.145, S.146, P.147, R.209, S.211 Ligands: MN.5 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:K.8, A:K.8, A:L.11, A:C.14, A:C.14, A:S.145, A:S.211 Water bridges: A:S.145, A:S.145, A:R.209, A:R.209 Salt bridges: A:R.23, A:R.23, A:R.209, A:R.209 pi-Stacking: A:F.19, A:F.19

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: Y.65, L.202, V.203, S.222, S.228 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.65, A:L.202, A:L.202, A:S.228, A:S.228 GOL.3: 3 residues within 4Å: Chain A: Q.195, G.223, N.224 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Q.195, A:G.223, A:G.223, A:N.224 Water bridges: A:H.192, A:I.225

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

SAM.4: 18 residues within 4Å: Chain A: S.51, G.53, T.54, G.76, C.77, G.78, G.80, G.81, W.82, T.99, I.100, E.106, M.125, D.126, V.127, F.128, D.141, I.142 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:S.51, A:C.77, A:G.80, A:G.81, A:W.82, A:W.82, A:T.99, A:I.100, A:D.126, A:V.127, A:D.141 Water bridges: A:R.79, A:S.83, A:G.101 Salt bridges: A:D.141

1 x MN: MANGANESE (II) ION(Non-functional Binders)

MN.5: 1 residues within 4Å: Ligands: GTP.1 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jia, H. et al., Crystal Structures of Flavivirus NS5 Guanylyltransferase Reveal a GMP-Arginine Adduct. J.Virol. (2022)

Release Date

2022-06-15

Peptides

Core protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Core protein

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