SMTL ID : 7d8u.2 (1 other biounit)

Crystal structure of the C-terminal domain of pNP868R from African swine fever virus

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

monomer

Ligands

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

SAM.1: 16 residues within 4Å: Chain A: K.25, G.42, I.43, G.44, Q.47, D.48, D.64, K.65, D.66, Q.97, D.98, L.99, N.127, L.128, F.129, Y.132 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:K.25, A:K.25, A:D.48, A:K.65, A:D.66, A:D.98, A:D.98, A:L.99, A:A.100 Water bridges: A:N.127, A:N.127 pi-Stacking: A:F.129, A:F.129

1 x FMT: FORMIC ACID(Non-functional Binders)

FMT.2: 1 residues within 4Å: Chain A: F.6 No protein-ligand interaction detected (PLIP)

5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 4 residues within 4Å: Chain A: H.111, I.113, G.115, F.116 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.115, A:G.115 EDO.4: 5 residues within 4Å: Chain A: L.95, K.109, Q.112, I.113, Y.114 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.109, A:Y.114 EDO.5: 4 residues within 4Å: Chain A: Q.204, E.205, T.206 Ligands: EDO.6 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.204, A:E.205, A:T.206 EDO.6: 4 residues within 4Å: Chain A: N.136, T.137, Q.138 Ligands: EDO.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.137, A:T.137, A:Q.138 EDO.7: 2 residues within 4Å: Chain A: G.50, R.76 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.46, A:G.50, A:R.76

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Du, X. et al., Structure and Biochemical Characteristic of the Methyltransferase (MTase) Domain of RNA Capping Enzyme from African Swine Fever Virus. J.Virol. (2020)

Release Date

2020-12-02

Peptides

GTP--RNA guanylyltransferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

GTP--RNA guanylyltransferase

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