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 […]
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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.
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
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
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
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]
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.
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
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.
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
Once again, I would like to thank reviewer number 5 for their perspicacity wrt to this additional figure.
November 6, 2025 at 10:59 PM
Once again, I would like to thank reviewer number 5 for their perspicacity wrt to this additional figure.
Human RNF149:p is a leukocyte type I membrane protein. It has 7 experimentally observed ubiquitin acceptors on its cytoplasmic domain. These acceptors are all within its RING/FYVE/PHD-type Zn-finger domain. How many E3 ligases would you expect to be responsible for these modifications? #proteomics
November 6, 2025 at 7:40 PM
Human RNF149:p is a leukocyte type I membrane protein. It has 7 experimentally observed ubiquitin acceptors on its cytoplasmic domain. These acceptors are all within its RING/FYVE/PHD-type Zn-finger domain. How many E3 ligases would you expect to be responsible for these modifications? #proteomics
Activating transcription factor 1 (ATF1:p) has 2 distinct pIDRs. There is an nward, low complexity S/T pIDR & another on the nward flank of its basic zipper DNA binding domain. The lace-curtain region in the middle may be largely β strands (based on modest evidence). #proteomics
November 6, 2025 at 1:53 PM
Activating transcription factor 1 (ATF1:p) has 2 distinct pIDRs. There is an nward, low complexity S/T pIDR & another on the nward flank of its basic zipper DNA binding domain. The lace-curtain region in the middle may be largely β strands (based on modest evidence). #proteomics
ZEB1:p (zinc finger E-box binding homeobox 1) is a transcription factor that has a couple of peripheral zinc fingers & a central homeobox domain. The pS/T acceptor occupancy pattern is pretty much what I would expect, esp. the rather artful pattern cward of the homeobox. #proteomics
November 5, 2025 at 1:50 PM
ZEB1:p (zinc finger E-box binding homeobox 1) is a transcription factor that has a couple of peripheral zinc fingers & a central homeobox domain. The pS/T acceptor occupancy pattern is pretty much what I would expect, esp. the rather artful pattern cward of the homeobox. #proteomics
Figure added in response to reviewer number 4's suggestions.
November 4, 2025 at 2:21 PM
Figure added in response to reviewer number 4's suggestions.
Human TCF3:p (transcription factor 3) is a neat example of how an alternate version of an exon can change things. No one seems to have taught these things canon law!
November 4, 2025 at 1:23 PM
Human TCF3:p (transcription factor 3) is a neat example of how an alternate version of an exon can change things. No one seems to have taught these things canon law!
Transcription factors really don't like Pauling-type structures, except for the bits that stick to DNA. Transcription factor 12 (TCF12:p) has a cward bright patch resulting from the basic helix-loop-helix gadget that fits into adjacent major grooves. All of […]
[Original post on mastodon.social]
[Original post on mastodon.social]
November 3, 2025 at 1:27 PM
Transcription factors really don't like Pauling-type structures, except for the bits that stick to DNA. Transcription factor 12 (TCF12:p) has a cward bright patch resulting from the basic helix-loop-helix gadget that fits into adjacent major grooves. All of […]
[Original post on mastodon.social]
[Original post on mastodon.social]
Yesterday's major news: the introduction of Coco.
November 2, 2025 at 2:11 PM
Yesterday's major news: the introduction of Coco.