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Structure paper

TitleA Structure-Based Model for the Complete Transcription Cycle of Influenza Polymerase.
Journal, issue, pagesCell, Vol. 181, Issue 4, Page 877-893.e21, Year 2020
Publish dateMay 14, 2020
AuthorsJoanna M Wandzik / Tomas Kouba / Manikandan Karuppasamy / Alexander Pflug / Petra Drncova / Jan Provaznik / Nayara Azevedo / Stephen Cusack /
PubMed AbstractInfluenza polymerase uses unique mechanisms to synthesize capped and polyadenylated mRNAs from the genomic viral RNA (vRNA) template, which is packaged inside ribonucleoprotein particles (vRNPs). ...Influenza polymerase uses unique mechanisms to synthesize capped and polyadenylated mRNAs from the genomic viral RNA (vRNA) template, which is packaged inside ribonucleoprotein particles (vRNPs). Here, we visualize by cryoelectron microscopy the conformational dynamics of the polymerase during the complete transcription cycle from pre-initiation to termination, focusing on the template trajectory. After exiting the active site cavity, the template 3' extremity rebinds into a specific site on the polymerase surface. Here, it remains sequestered during all subsequent transcription steps, forcing the template to loop out as it further translocates. At termination, the strained connection between the bound template 5' end and the active site results in polyadenylation by stuttering at uridine 17. Upon product dissociation, further conformational changes release the trapped template, allowing recycling back into the pre-initiation state. Influenza polymerase thus performs transcription while tightly binding to and protecting both template ends, allowing efficient production of multiple mRNAs from a single vRNP.
External linksCell / PubMed:32304664
MethodsEM (single particle) / X-ray diffraction
Resolution2.41 - 3.52 Å
Structure data

EMDB-10354, PDB-6szu:
Bat Influenza A polymerase pre-termination complex with pyrophosphate using 44-mer vRNA template with mutated oligo(U) sequence
Method: EM (single particle) / Resolution: 2.41 Å

EMDB-10355, PDB-6szv:
Bat Influenza A polymerase elongation complex with incoming UTP analogue (core + endonuclease only)
Method: EM (single particle) / Resolution: 2.5 Å

EMDB-10356, PDB-6t0n:
Bat Influenza A polymerase pre-initiation complex
Method: EM (single particle) / Resolution: 2.54 Å

EMDB-10357, PDB-6t0r:
Bat Influenza A polymerase product dissociation complex using 44-mer vRNA template with mutated oligo(U) sequence
Method: EM (single particle) / Resolution: 2.82 Å

EMDB-10358, PDB-6t0s:
Bat Influenza A polymerase stuttering complex using 44-mer vRNA template with intact oligo(U) sequence
Method: EM (single particle) / Resolution: 3.04 Å

EMDB-10359, PDB-6t0u:
Bat Influenza A polymerase product dissociation complex using 44-mer vRNA template with intact oligo(U) sequence
Method: EM (single particle) / Resolution: 3.12 Å

EMDB-10360, PDB-6t0v:
Bat Influenza A polymerase elongation complex with incoming UTP analogue (complete polymerase)
Method: EM (single particle) / Resolution: 3.02 Å

EMDB-10361, PDB-6t0w:
Human Influenza B polymerase recycling complex
Method: EM (single particle) / Resolution: 3.18 Å

EMDB-10368, PDB-6t2c:
Bat Influenza A polymerase recycling complex
Method: EM (single particle) / Resolution: 3.52 Å

EMDB-10603, PDB-6tw1:
Bat Influenza A polymerase termination complex with pyrophosphate using 44-mer vRNA template with mutated oligo(U) sequence
Method: EM (single particle) / Resolution: 2.7 Å

PDB-6tu5:
Influenza A/H7N9 polymerase core (apo)
Method: X-RAY DIFFRACTION / Resolution: 3.325 Å

Chemicals

ChemComp-M4H:
5-oxidanyl-4-oxidanylidene-1-[(1-pyrrolo[2,3-b]pyridin-1-ylcyclopentyl)methyl]pyridine-3-carboxylic acid

ChemComp-MG:
Unknown entry

ChemComp-POP:
PYROPHOSPHATE 2- / Pyrophosphate

ChemComp-HOH:
WATER / Water

ChemComp-2KH:
5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]uridine

Source
  • influenza a virus (a/little yellow-shouldered bat/guatemala/060/2010(h17n10))
  • influenza b virus
  • synthetic construct (others)
  • influenza a virus (a/zhejiang/dtid-zju01/2013(h7n9))
KeywordsVIRAL PROTEIN / Influenza / polymerase / viral transcription / RNA / RNA-dependent RNA polymerase

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