5D98

Influenza C Virus RNA-dependent RNA Polymerase - Space group P43212

Summary for 5D98

• Entry DOI: 10.2210/pdb5d98/pdb
• Related: 5D9A
• Descriptor: Polymerase acidic protein, RNA-directed RNA polymerase catalytic subunit, Polymerase basic protein 2, ... (4 entities in total)
• Functional Keywords: rna-dependent rna polymerase, influenza, influenza c virus, negative-strand virus, transferase-rna complex, transferase/rna
• Biological source: Influenza C virus (strain C/Johannesburg/1/1966); More
• Cellular location: Host cytoplasm : Q9IMP5; Host nucleus : Q9IMP4; Virion : Q9IMP3
• Total number of polymer chains: 6
• Total formula weight: 514385.27

Authors

Hengrung, N.,El Omari, K.,Serna Martin, I.,Vreede, F.T.,Cusack, S.,Rambo, R.P.,Vonrhein, C.,Bricogne, G.,Stuart, D.I.,Grimes, J.M.,Fodor, E. (deposition date: 2015-08-18, release date: 2015-10-21, Last modification date: 2017-09-13)

Primary citation

Hengrung, N.,El Omari, K.,Serna Martin, I.,Vreede, F.T.,Cusack, S.,Rambo, R.P.,Vonrhein, C.,Bricogne, G.,Stuart, D.I.,Grimes, J.M.,Fodor, E.
Crystal structure of the RNA-dependent RNA polymerase from influenza C virus.
Nature, 527:114-117, 2015

PubMed Abstract: Negative-sense RNA viruses, such as influenza, encode large, multidomain RNA-dependent RNA polymerases that can both transcribe and replicate the viral RNA genome. In influenza virus, the polymerase (FluPol) is composed of three polypeptides: PB1, PB2 and PA/P3. PB1 houses the polymerase active site, whereas PB2 and PA/P3 contain, respectively, cap-binding and endonuclease domains required for transcription initiation by cap-snatching. Replication occurs through de novo initiation and involves a complementary RNA intermediate. Currently available structures of the influenza A and B virus polymerases include promoter RNA (the 5' and 3' termini of viral genome segments), showing FluPol in transcription pre-initiation states. Here we report the structure of apo-FluPol from an influenza C virus, solved by X-ray crystallography to 3.9 Å, revealing a new 'closed' conformation. The apo-FluPol forms a compact particle with PB1 at its centre, capped on one face by PB2 and clamped between the two globular domains of P3. Notably, this structure is radically different from those of promoter-bound FluPols. The endonuclease domain of P3 and the domains within the carboxy-terminal two-thirds of PB2 are completely rearranged. The cap-binding site is occluded by PB2, resulting in a conformation that is incompatible with transcription initiation. Thus, our structure captures FluPol in a closed, transcription pre-activation state. This reveals the conformation of newly made apo-FluPol in an infected cell, but may also apply to FluPol in the context of a non-transcribing ribonucleoprotein complex. Comparison of the apo-FluPol structure with those of promoter-bound FluPols allows us to propose a mechanism for FluPol activation. Our study demonstrates the remarkable flexibility of influenza virus RNA polymerase, and aids our understanding of the mechanisms controlling transcription and genome replication.

PubMed: 26503046
DOI: 10.1038/nature15525

Experimental method

X-RAY DIFFRACTION (3.9 Å)