Sairam
@dsairam789.bsky.social
Cricket,SUMO, Viruses and AlphaFold in that order.
Reposted by Sairam
📢 New preprint:
Experiment-guided AlphaFold3 resolves accurate protein ensembles.
doi.org/10.1101/2025...
AlphaFold3 is incredible, but has crucial limitations: it typically collapses to a single conformation, ignoring the inherent dynamics of proteins. And it can be wrong. Here's a solution. 🧵👇
Experiment-guided AlphaFold3 resolves accurate protein ensembles.
doi.org/10.1101/2025...
AlphaFold3 is incredible, but has crucial limitations: it typically collapses to a single conformation, ignoring the inherent dynamics of proteins. And it can be wrong. Here's a solution. 🧵👇
October 18, 2025 at 6:59 PM
📢 New preprint:
Experiment-guided AlphaFold3 resolves accurate protein ensembles.
doi.org/10.1101/2025...
AlphaFold3 is incredible, but has crucial limitations: it typically collapses to a single conformation, ignoring the inherent dynamics of proteins. And it can be wrong. Here's a solution. 🧵👇
Experiment-guided AlphaFold3 resolves accurate protein ensembles.
doi.org/10.1101/2025...
AlphaFold3 is incredible, but has crucial limitations: it typically collapses to a single conformation, ignoring the inherent dynamics of proteins. And it can be wrong. Here's a solution. 🧵👇
Reposted by Sairam
Viral AlphaFold Database (VAD) is live in Science Advances
~27,000 predicted viral protein monomers & homodimers
Conserved folds across bacteria, archaea & eukaryotic viruses
New toxin–antitoxin system KreTA uncovered
Vast “functional darkness” remains uncharted
www.science.org/doi/10.1126/...
~27,000 predicted viral protein monomers & homodimers
Conserved folds across bacteria, archaea & eukaryotic viruses
New toxin–antitoxin system KreTA uncovered
Vast “functional darkness” remains uncharted
www.science.org/doi/10.1126/...
The Viral AlphaFold Database of monomers and homodimers reveals conserved protein folds in viruses of bacteria, archaea, and eukaryotes
VAD is a Viral AlphaFold Database of protein monomers and homodimers from viruses infecting hosts across the tree of life.
www.science.org
October 2, 2025 at 8:48 AM
Viral AlphaFold Database (VAD) is live in Science Advances
~27,000 predicted viral protein monomers & homodimers
Conserved folds across bacteria, archaea & eukaryotic viruses
New toxin–antitoxin system KreTA uncovered
Vast “functional darkness” remains uncharted
www.science.org/doi/10.1126/...
~27,000 predicted viral protein monomers & homodimers
Conserved folds across bacteria, archaea & eukaryotic viruses
New toxin–antitoxin system KreTA uncovered
Vast “functional darkness” remains uncharted
www.science.org/doi/10.1126/...
Reposted by Sairam
October issue is now available! journals.iucr.org/d/issues/202...
The cover highlights the article on categorizing prediction modes within low-pLDDT regions of AlphaFold2 structures from the Richardson lab @duke-university.bsky.social : doi.org/10.1107/S205...
Image credit: Chistopher Williams
The cover highlights the article on categorizing prediction modes within low-pLDDT regions of AlphaFold2 structures from the Richardson lab @duke-university.bsky.social : doi.org/10.1107/S205...
Image credit: Chistopher Williams
October 2, 2025 at 1:58 PM
October issue is now available! journals.iucr.org/d/issues/202...
The cover highlights the article on categorizing prediction modes within low-pLDDT regions of AlphaFold2 structures from the Richardson lab @duke-university.bsky.social : doi.org/10.1107/S205...
Image credit: Chistopher Williams
The cover highlights the article on categorizing prediction modes within low-pLDDT regions of AlphaFold2 structures from the Richardson lab @duke-university.bsky.social : doi.org/10.1107/S205...
Image credit: Chistopher Williams
Reposted by Sairam
New week, new tool: Find our Protein Domain Designer tool to generate publication-ready protein domain diagrams here: domaindesigner.farnunglab.com
September 29, 2025 at 3:01 PM
New week, new tool: Find our Protein Domain Designer tool to generate publication-ready protein domain diagrams here: domaindesigner.farnunglab.com
Reposted by Sairam
New online: Cryo-EM structures reveal the molecular mechanism of SUMO E1–E2 thioester transfer
Cryo-EM structures reveal the molecular mechanism of SUMO E1–E2 thioester transfer
Nature Structural & Molecular Biology, Published online: 25 September 2025; doi:10.1038/s41594-025-01681-8This study reveals how human small ubiquitin-like modifier (SUMO) E1 recruits its E2 partner UBC9 and transfers SUMO1 through large structural changes, uncovering key mechanisms that ensure specificity and fidelity in SUMOylation, an essential protein modification pathway.
go.nature.com
September 25, 2025 at 11:59 AM
New online: Cryo-EM structures reveal the molecular mechanism of SUMO E1–E2 thioester transfer
Predicting protein-protein interactions in the human proteome | Science www.science.org/doi/10.1126/...
Predicting protein-protein interactions in the human proteome
Protein-protein interactions (PPI) are essential for biological function. Coevolutionary analysis and deep learning (DL) based protein structure prediction have enabled comprehensive PPI identificatio...
www.science.org
September 26, 2025 at 5:13 PM
Predicting protein-protein interactions in the human proteome | Science www.science.org/doi/10.1126/...
Reposted by Sairam
Dear scientific community,
I am looking for two postdoctoral structural biologists to join my group at the Department of Biochemistry, University of Oxford.
my.corehr.com/pls/uoxrecru...
my.corehr.com/pls/uoxrecru...
I am looking for two postdoctoral structural biologists to join my group at the Department of Biochemistry, University of Oxford.
my.corehr.com/pls/uoxrecru...
my.corehr.com/pls/uoxrecru...
September 8, 2025 at 3:16 PM
Dear scientific community,
I am looking for two postdoctoral structural biologists to join my group at the Department of Biochemistry, University of Oxford.
my.corehr.com/pls/uoxrecru...
my.corehr.com/pls/uoxrecru...
I am looking for two postdoctoral structural biologists to join my group at the Department of Biochemistry, University of Oxford.
my.corehr.com/pls/uoxrecru...
my.corehr.com/pls/uoxrecru...
Reposted by Sairam
I supervise an excellent postdoc who's looking for a postdoc or associate position in < 1 yr. Highly skilled in chem biol and biochem (peptide synthesis, native chem ligation, bacterial expression, purification, intein-based splicing, crystallography, interaction assays). Contact me if interested.
September 5, 2025 at 5:41 AM
I supervise an excellent postdoc who's looking for a postdoc or associate position in < 1 yr. Highly skilled in chem biol and biochem (peptide synthesis, native chem ligation, bacterial expression, purification, intein-based splicing, crystallography, interaction assays). Contact me if interested.
Reposted by Sairam
OsSPT38 encodes a novel SUMO E3 ligase that enhances rice stress resilience and grain yield #research #MolecularPlant cell.com/molecular-pl...
September 4, 2025 at 12:40 PM
OsSPT38 encodes a novel SUMO E3 ligase that enhances rice stress resilience and grain yield #research #MolecularPlant cell.com/molecular-pl...