SMTL ID : 6tz1.1

In situ structure of BmCPV RNA-dependent RNA polymerase at early-elongation state

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-mer

Ligands

1 x U- U- U- U- U- U- U- U- U: Transcript (5'-R(P*UP*UP*UP*UP*UP*CP*CP*CP*U)-3')(Non-covalent)

U-U-U-U-U-U-U-U-U.1: 33 residues within 4Å: Chain A: R.141, T.423, R.484, L.678, G.679, D.680, D.681, L.723, Q.724, R.738, I.739, R.744, D.746, K.748, I.750, L.755, M.758, E.759, A.762, L.763, D.766, D.966, K.976, K.979 Chain C: A.3, A.4, A.5, A.6, A.7, A.8, A.9, A.10, A.11 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:T.422, A:S.424, A:S.424, A:S.425, A:S.425, A:R.479, A:Y.504, A:Q.522, A:G.640, A:R.841, A:D.915 Salt bridges: A:R.449

1 x GTA- G- U- A: Non-template RNA (5'-D(*(GTA))-R(P*GP*UP*A)-3')(Non-covalent)

GTA-G-U-A.2: 18 residues within 4Å: Chain A: R.37, D.144, Y.184, S.186, P.187, S.188, I.750, G.751, R.791, F.792, T.793, S.795, Y.817, D.818, N.820, F.823, S.825, L.827 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:N.195, A:R.791, A:R.791, A:R.791, A:T.793, A:T.793, A:Y.817 Salt bridges: A:R.791 pi-Stacking: A:Y.184, A:Y.184 pi-Cation interactions: A:R.37, A:R.37

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cui, Y. et al., Conservative transcription in three steps visualized in a double-stranded RNA virus. Nat.Struct.Mol.Biol. (2019)

Release Date

2019-11-20

Peptides

RNA-dependent RNA Polymerase: A
Viral structural protein 4: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

RNA-dependent RNA Polymerase

Viral structural protein 4

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