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Slack / Private Message Drop, p.562 [SLACK_000776] · slack_pm:msg:05868

Date: 2021-03-02 18:33
Type: chat message · slack
recipient: Robert F. Garry, Edward C. Holmes, Andrew Rambaut
speaker: Kristian G. Andersen

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I can't... We're unfortunately not allowed to pull GISAID IDs... I can see UK has a few of the double mutants too. https://outbreak.info/situation-reports?pango&muts=S%3AN501Y&muts=S%3AL455F

Links shared

other https://outbreak.info/situation-reports?pango&muts=S%3AN501Y&muts=S%3AL455F

In context

A single line often inverts meaning once you see what it answers, so neighbouring messages are always shown.

2021-03-02 18:01 Edward C. Holmes open

Oh, don't get me started...
2021-03-02 18:04 Kristian G. Andersen open

Back to science - we just picked up two _very_ interesting "CA" lineage viruses carrying the d144 deletion and a few other mutations, including N501Y and (more intriguingly) L455F - two out of six of the contact residues hit in a single lineage. L455F is rare - mostly seen in a few genomes from Australia. Eddie, do you have any idea if that mutation was looked into? @Robert Garry your eyes on L455F? Remember, the "CA" lineage has the L452R mutation too, so I wonder if those two together might do something funky. [shared file(s): Screen Shot 2021-03-02 at 6.01.56 PM.png, Protein alignment.geneious]
2021-03-02 18:05 Kristian G. Andersen open

The screenshot - two bottom sequences = new genomes. Above that, "Type" B.1.429 and above that, Wuhan Hu-1.
2021-03-02 18:13 Edward C. Holmes open

Can you tell me what the Australian sequences are? I'll look into it. No way that L455F will have been studied here.
2021-03-02 18:33 Kristian G. Andersen

I can't... We're unfortunately not allowed to pull GISAID IDs... I can see UK has a few of the double mutants too. https://outbreak.info/situation-reports?pango&muts=S%3AN501Y&muts=S%3AL455F
2021-03-02 18:45 Edward C. Holmes open

Ok, I'll ask about it.
2021-03-02 18:47 Robert F. Garry open

I'll look - any change to an aromatic amino acid could potentially set up a stronger binding.
2021-03-02 18:50 Kristian G. Andersen open

Yeah, interesting model here: http://biosig.unimelb.edu.au/covid3d/mutation/QHD43416/ACE2_BOAT/L455F/A. But I feel that L452R mutation must mess around with this whole interface, so lord knows what L455F does on top. Probably all just random, but pretty interesting to see 2/6 key binding residues hit in a single virus (and acharacteristic deletion - so probably some funky infection).

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