SMTL ID : 7v1g.1

Crystal structure of Omsk hemorrhagic fever virus NS5 MTase (with a GMP-Arg28 adduct and in complex with SAM)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.38 Å

Oligo State

monomer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: S.145, L.180, T.212 Ligands: GTP.5 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:S.145, A:T.212, H2O.1, H2O.2, H2O.4

1 x CIT: CITRIC ACID(Non-functional Binders)

CIT.2: 5 residues within 4Å: Chain A: Q.131, P.132, H.133, R.134, R.169 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.134 Salt bridges: A:R.169

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

SAM.3: 17 residues within 4Å: Chain A: S.51, G.53, G.76, C.77, G.78, G.80, G.81, W.82, T.99, I.100, H.105, M.125, D.126, V.127, F.128, D.141, I.142 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:S.51, A:C.77, A:R.79, A:G.80, A:G.81, A:W.82, A:T.99, A:I.100, A:H.105, A:E.106, A:D.126, A:D.126, A:V.127, A:D.141 Water bridges: A:D.74, A:G.76, A:S.83, A:G.143

1 x 5GP: GUANOSINE-5'-MONOPHOSPHATE(Covalent)

5GP.4: 12 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, S.211 Ligands: GTP.5 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:K.8, A:K.8, A:C.14, A:C.14 Water bridges: A:C.14, A:K.16, A:S.145 Salt bridges: A:R.23 pi-Stacking: A:F.19, A:F.19

1 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Covalent)

GTP.5: 14 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: MG.1, 5GP.4 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:K.8, A:K.8, A:L.11, A:C.14, A:R.209, A:S.211 Water bridges: A:C.14, A:K.16, A:S.145, A:S.145 Salt bridges: A:R.23, A:R.23, A:R.23 pi-Stacking: A:F.19, A:F.19

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 4 residues within 4Å: Chain A: R.32, R.36, R.52, R.209 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.32, A:R.32, A:R.36, A:R.52, A:R.209

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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