SMTL ID : 8bf5.1

Early transcription elongation state of influenza A/H7N9 polymerase stalled with incoming GTP analogue

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-mer

Ligands

3 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 2 residues within 4Å: Chain A: E.95, D.123 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:E.95 MG.3: 8 residues within 4Å: Chain B: T.312, G.313, D.314, D.454, F.455, E.499, F.500, T.501 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.314, B:D.454, B:D.454 MG.4: 3 residues within 4Å: Chain A: R.674 Chain B: K.489 Ligands: G2P.2 No protein-ligand interaction detected (PLIP)

1 x G2P: PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER(Non-covalent)

G2P.2: 16 residues within 4Å: Chain B: K.238, K.244, R.248, I.250, T.316, K.317, W.318, N.319, M.419, S.452, D.453, K.489 Chain E: C.8, U.9 Chain F: A.19 Ligands: MG.4 15 PLIP interactions: 15 interactions with chain B Hydrogen bonds: B:K.238, B:R.248, B:T.316, B:T.316, B:K.317, B:W.318, B:N.319, B:N.319, B:N.319, B:M.419, B:K.489 Salt bridges: B:K.317, B:K.489 pi-Cation interactions: B:R.248, B:R.248

1 x GTA: P1-7-METHYLGUANOSINE-P3-ADENOSINE-5',5'-TRIPHOSPHATE(Non-covalent)

GTA.5: 24 residues within 4Å: Chain C: S.267, Q.268, I.271, R.275, G.315, D.316, R.333, Q.334, R.335, F.336, R.343, K.350, W.368, E.372, F.374, K.387, F.415, Q.417, S.440, M.442, Y.443, S.529, L.531 Chain F: A.1 21 PLIP interactions: 21 interactions with chain C Hydrogen bonds: C:S.267, C:G.315, C:R.333, C:Q.334, C:R.335, C:R.335, C:K.387, C:S.440, C:Y.443, C:S.529, C:S.529 Salt bridges: C:R.275, C:K.350, C:K.350, C:K.350, C:E.372 pi-Stacking: C:W.368, C:W.368, C:F.415 pi-Cation interactions: C:W.368, C:W.368

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kouba, T. et al., Direct observation of backtracking by influenza A and B polymerases upon consecutive incorporation of the nucleoside analog T1106. Cell Rep (2023)

Release Date

2022-12-28

Peptides

Polymerase acidic protein: A
RNA-directed RNA polymerase catalytic subunit: B
Polymerase basic protein 2: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Polymerase acidic protein

RNA-directed RNA polymerase catalytic subunit

Polymerase basic protein 2

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