Ron Beavis ❌
@ronbeavis.mastodon.social.ap.brid.gy
Doing science for money since 1981.
Putting it online since 1995.
Just say no to cancer research (lesson learned).
QA >> QC
I enjoy doing things I am not very good […]
🌉 bridged from ⁂ https://mastodon.social/@RonBeavis, follow @ap.brid.gy to interact
Putting it online since 1995.
Just say no to cancer research (lesson learned).
QA >> QC
I enjoy doing things I am not very good […]
🌉 bridged from ⁂ https://mastodon.social/@RonBeavis, follow @ap.brid.gy to interact
Ankyrin-repeat domain 28 (ANKRD28:p) has a long domain with 27 ankyrin-repeats taking up most all of the sequence, a regulatory subunit of protein phosphatase 6. It has a C-terminal PUZZLE domain with multiple occupied pS/pT acceptors. #proteomics
November 18, 2025 at 12:30 PM
Ankyrin-repeat domain 28 (ANKRD28:p) has a long domain with 27 ankyrin-repeats taking up most all of the sequence, a regulatory subunit of protein phosphatase 6. It has a C-terminal PUZZLE domain with multiple occupied pS/pT acceptors. #proteomics
A Day in the Life.
November 17, 2025 at 2:58 PM
A Day in the Life.
November 17, 2025 at 1:35 PM
Ankyrin-repeat domain 34 A (ANKRD34A:p) has its eponymous 4 repeat domain at the N-terminus. The majority of sequence is made up of multiple phosphorylated low complexity intrinsically disorder regions (aka PUZZLE domains). #proteomics
November 17, 2025 at 1:10 PM
Ankyrin-repeat domain 34 A (ANKRD34A:p) has its eponymous 4 repeat domain at the N-terminus. The majority of sequence is made up of multiple phosphorylated low complexity intrinsically disorder regions (aka PUZZLE domains). #proteomics
"Death by Lightning" was entertaining.
November 16, 2025 at 6:20 PM
"Death by Lightning" was entertaining.
Since I didn't get anything back yesterday, I'll ask again:
Is there an existing terminology to refer to the two proximal flanking IDRs associated with a named structured domain?
Is there an existing terminology to refer to the two proximal flanking IDRs associated with a named structured domain?
November 16, 2025 at 2:02 PM
Since I didn't get anything back yesterday, I'll ask again:
Is there an existing terminology to refer to the two proximal flanking IDRs associated with a named structured domain?
Is there an existing terminology to refer to the two proximal flanking IDRs associated with a named structured domain?
SH3 and multiple ankyrin repeat domains 1―SHANK1:p―has 5 selectively sticky structures (in order N→C): 2×ankyrin repeats (back-to-back), 1×SH3, 1×PDZ & 1×Sterile Alpha domains. Each of them has their own flanking pS/pT acceptors along with a riff of pS's defining a big, dark cluster of pIDRs.
November 16, 2025 at 1:57 PM
SH3 and multiple ankyrin repeat domains 1―SHANK1:p―has 5 selectively sticky structures (in order N→C): 2×ankyrin repeats (back-to-back), 1×SH3, 1×PDZ & 1×Sterile Alpha domains. Each of them has their own flanking pS/pT acceptors along with a riff of pS's defining a big, dark cluster of pIDRs.
Sosondowah ankyrin repeat domain family member B (SOWAHB:p) is named because of a regrettable period when it was OK to label genomic features using anglicized North American native names. Note that the ankyrin domain (620-730) has a prominent pS acceptor on its cward flank. #proteomics
November 15, 2025 at 12:52 PM
Sosondowah ankyrin repeat domain family member B (SOWAHB:p) is named because of a regrettable period when it was OK to label genomic features using anglicized North American native names. Note that the ankyrin domain (620-730) has a prominent pS acceptor on its cward flank. #proteomics
My cat is trying to solve the object impermanence puzzle posed by You Tube videos of bird & squirrel feeders.
November 14, 2025 at 3:58 PM
My cat is trying to solve the object impermanence puzzle posed by You Tube videos of bird & squirrel feeders.
Adenosine diphosphate-ribosylation factor GTPase-activating protein with Src homology 3 domain, ankyrin repeat & pleckstrin homology domain 2 (ASAP2:p) is ASAP1:p redux, but with an pS acceptor that evolution has put under a bushel in mice. #proteomics
November 14, 2025 at 12:53 PM
Adenosine diphosphate-ribosylation factor GTPase-activating protein with Src homology 3 domain, ankyrin repeat & pleckstrin homology domain 2 (ASAP2:p) is ASAP1:p redux, but with an pS acceptor that evolution has put under a bushel in mice. #proteomics
For the last 3 weeks I have been telling the Google News app on my phone several times a day that I do not want to see headlines about sports or AI or any tweets from X. Needless to say, my feed is still full of just those things.
November 13, 2025 at 3:28 PM
For the last 3 weeks I have been telling the Google News app on my phone several times a day that I do not want to see headlines about sports or AI or any tweets from X. Needless to say, my feed is still full of just those things.
Adenosine diphosphate-ribosylation factor GTPase-activating protein with Src homology 3 domain, ankyrin repeat & pleckstrin homology domain 1 (ASAP1:p) is a poster child for the "proteins are collections of functional domains" idea, but what these particular […]
[Original post on mastodon.social]
[Original post on mastodon.social]
November 13, 2025 at 2:54 PM
Adenosine diphosphate-ribosylation factor GTPase-activating protein with Src homology 3 domain, ankyrin repeat & pleckstrin homology domain 1 (ASAP1:p) is a poster child for the "proteins are collections of functional domains" idea, but what these particular […]
[Original post on mastodon.social]
[Original post on mastodon.social]
Reposted by Ron Beavis ❌
Abandoning these rankings is way overdue, IMHO:
"The higher-education sector should collectively — and vocally — agree that the current rankings are not fit for purpose."
https://www.nature.com/articles/d41586-025-03636-x
Lizzie Gadd @lizziegadd is spot on, as always!
#rankings #universities […]
"The higher-education sector should collectively — and vocally — agree that the current rankings are not fit for purpose."
https://www.nature.com/articles/d41586-025-03636-x
Lizzie Gadd @lizziegadd is spot on, as always!
#rankings #universities […]
Original post on mastodon.social
mastodon.social
November 12, 2025 at 3:58 PM
Abandoning these rankings is way overdue, IMHO:
"The higher-education sector should collectively — and vocally — agree that the current rankings are not fit for purpose."
https://www.nature.com/articles/d41586-025-03636-x
Lizzie Gadd @lizziegadd is spot on, as always!
#rankings #universities […]
"The higher-education sector should collectively — and vocally — agree that the current rankings are not fit for purpose."
https://www.nature.com/articles/d41586-025-03636-x
Lizzie Gadd @lizziegadd is spot on, as always!
#rankings #universities […]
While ankyrin tandem repeat domains can stretch across big chunks of sequence, they don't have to be large. Ankyrin repeat domain 11 (ANKRD11:p) has a 100 residue domain (3 repeats) flanked by pS acceptors. The rest of the protein is made up of IDRs & a conserved constellation of pS acceptors.
November 12, 2025 at 12:35 PM
While ankyrin tandem repeat domains can stretch across big chunks of sequence, they don't have to be large. Ankyrin repeat domain 11 (ANKRD11:p) has a 100 residue domain (3 repeats) flanked by pS acceptors. The rest of the protein is made up of IDRs & a conserved constellation of pS acceptors.
Looks like another LLM-corpus-stuffing attack is going on this morning: these silly things waste more time than they are probably ever worth for the attackers.
November 11, 2025 at 4:16 PM
Looks like another LLM-corpus-stuffing attack is going on this morning: these silly things waste more time than they are probably ever worth for the attackers.
Does any one really believe in non-linear epitopes any more? They are mentioned in recent reviews (often with names like "conformational" or "discontinuous" epitope), but they do seem to have fallen out of favour.
November 11, 2025 at 2:58 PM
Does any one really believe in non-linear epitopes any more? They are mentioned in recent reviews (often with names like "conformational" or "discontinuous" epitope), but they do seem to have fallen out of favour.
Ankyrin repeat domain 17 (ANKRD17:p) actually has 2 of them, with the regular striping artifact frequently found in calculated structures for this type of domain. The pS acceptor action near the N-terminus and the broader cward pIDR are not identical but clearly evolutionarily conserved. #proteomics
November 11, 2025 at 2:13 PM
Ankyrin repeat domain 17 (ANKRD17:p) actually has 2 of them, with the regular striping artifact frequently found in calculated structures for this type of domain. The pS acceptor action near the N-terminus and the broader cward pIDR are not identical but clearly evolutionarily conserved. #proteomics
Tetratricopeptide repeat, ankyrin repeat & coiled-coil containing 2 (TANC2:p) appears very similar to TANC1:p in this representation, even though they share only a few tryptic peptides (~2% of residues). The same domains (incl. no coiled-coils) & dazzle patterned pIDRs. #proteomics
November 10, 2025 at 12:19 PM
Tetratricopeptide repeat, ankyrin repeat & coiled-coil containing 2 (TANC2:p) appears very similar to TANC1:p in this representation, even though they share only a few tryptic peptides (~2% of residues). The same domains (incl. no coiled-coils) & dazzle patterned pIDRs. #proteomics
The Peter Principle, as played out in the news.
https://www.theguardian.com/us-news/2025/nov/08/kristi-noem-spirit-airlines-planes
https://www.theguardian.com/us-news/2025/nov/08/kristi-noem-spirit-airlines-planes
November 9, 2025 at 4:12 PM
The Peter Principle, as played out in the news.
https://www.theguardian.com/us-news/2025/nov/08/kristi-noem-spirit-airlines-planes
https://www.theguardian.com/us-news/2025/nov/08/kristi-noem-spirit-airlines-planes
Tetratricopeptide repeat, ankyrin repeat and coiled-coil containing 1 (TANC1:p) is one of those sequences in which its coiled-coil seems to have gone missing with time. The sequence is bedazzled with pS acceptors that nicely confirm the location of its IDRs. #proteomics
November 9, 2025 at 2:26 PM
Tetratricopeptide repeat, ankyrin repeat and coiled-coil containing 1 (TANC1:p) is one of those sequences in which its coiled-coil seems to have gone missing with time. The sequence is bedazzled with pS acceptors that nicely confirm the location of its IDRs. #proteomics
The eye wall of Very Strong Typhoon Fung-wong is making landfall on Luzon this morning.
November 9, 2025 at 12:05 PM
The eye wall of Very Strong Typhoon Fung-wong is making landfall on Luzon this morning.
I suspect there will be no shortage of groceries caused by Big John skedaddling to Miami. Wealth generated by consolidating ownership is not the same as creating truly new industries […]
Original post on mastodon.social
mastodon.social
November 8, 2025 at 3:42 PM
I suspect there will be no shortage of groceries caused by Big John skedaddling to Miami. Wealth generated by consolidating ownership is not the same as creating truly new industries […]
JUN:p proto-oncogene, activator protein-1 transcription factor subunit is in a family of proteins that form homo/hetero-dimers via their cward basic L-zipper domains with different DNA specificities. They also share pS/T-IDRs: one flanking the L-zipper & a more complex nward set of acceptors.
November 8, 2025 at 2:18 PM
JUN:p proto-oncogene, activator protein-1 transcription factor subunit is in a family of proteins that form homo/hetero-dimers via their cward basic L-zipper domains with different DNA specificities. They also share pS/T-IDRs: one flanking the L-zipper & a more complex nward set of acceptors.
Activating transcription factor 2 (ATF2:p) has 2 prominent pS/T acceptors on the cward flank of its C2H2 zinc finger & 2 on the nward flank of its basic L-zipper. To function, it must form a dimer with a complementary basic L-zipper containing sequence. #proteomics
November 7, 2025 at 1:57 PM
Activating transcription factor 2 (ATF2:p) has 2 prominent pS/T acceptors on the cward flank of its C2H2 zinc finger & 2 on the nward flank of its basic L-zipper. To function, it must form a dimer with a complementary basic L-zipper containing sequence. #proteomics