GlycoShape
@glycoshape.org
Glycan 3D database and toolbox for the reconstruction of glycoproteins from the RCSB PDB and EMBL-EBI AlphaFold repositories or own. Find us at https://glycoshape.org. Curated by head chef @elisafadda.bsky.social and sous chef @ojas-singh.bsky.social
3/3 GlycoShape is an open access library of glycan structures from MD simulations that gives users all the diff structures significantly occupied at equilibrium and tools to reconstruct the target glycoproteins with a single representative conformer (Re-Glyco) or multiple (Re-Glyco Ensemble)
December 2, 2025 at 6:28 PM
3/3 GlycoShape is an open access library of glycan structures from MD simulations that gives users all the diff structures significantly occupied at equilibrium and tools to reconstruct the target glycoproteins with a single representative conformer (Re-Glyco) or multiple (Re-Glyco Ensemble)
2/3 Glycans aren't genetically encoded (non-templated), so they can be quite heterogeneous.
This is a problem especially in cryo-EM studies of glycoproteins, where you can assign clearly the common denominator and most rigid part of the glycan, usually the bit linked to the aglycon
This is a problem especially in cryo-EM studies of glycoproteins, where you can assign clearly the common denominator and most rigid part of the glycan, usually the bit linked to the aglycon
December 2, 2025 at 5:50 PM
2/3 Glycans aren't genetically encoded (non-templated), so they can be quite heterogeneous.
This is a problem especially in cryo-EM studies of glycoproteins, where you can assign clearly the common denominator and most rigid part of the glycan, usually the bit linked to the aglycon
This is a problem especially in cryo-EM studies of glycoproteins, where you can assign clearly the common denominator and most rigid part of the glycan, usually the bit linked to the aglycon
Tuesday #glycotime 🥄🍬
Glycans are a 🔝 example of "disordered" molecules. Inherent flexibility prevents sugars from adopting fixed, unique 3D positions relative to the crystal lattice, so they often are invisible to X-ray diffraction, unless they are bound and thus restrained in place 1/3 🧵
Glycans are a 🔝 example of "disordered" molecules. Inherent flexibility prevents sugars from adopting fixed, unique 3D positions relative to the crystal lattice, so they often are invisible to X-ray diffraction, unless they are bound and thus restrained in place 1/3 🧵
December 2, 2025 at 5:36 PM
Tuesday #glycotime 🥄🍬
Glycans are a 🔝 example of "disordered" molecules. Inherent flexibility prevents sugars from adopting fixed, unique 3D positions relative to the crystal lattice, so they often are invisible to X-ray diffraction, unless they are bound and thus restrained in place 1/3 🧵
Glycans are a 🔝 example of "disordered" molecules. Inherent flexibility prevents sugars from adopting fixed, unique 3D positions relative to the crystal lattice, so they often are invisible to X-ray diffraction, unless they are bound and thus restrained in place 1/3 🧵
It's Fucose Friday 🔺, the best #glycotime of the week!
Fucose is commonly found as a glycan modification, but it can be linked directly to proteins as O-fucose 😎
Here ⬇️ O-fucosylation of TSR1 by POFUT2 in the ER stabilises the TSRs characteristic fold 🤩
pmc.ncbi.nlm.nih.gov/articles/PMC...
Fucose is commonly found as a glycan modification, but it can be linked directly to proteins as O-fucose 😎
Here ⬇️ O-fucosylation of TSR1 by POFUT2 in the ER stabilises the TSRs characteristic fold 🤩
pmc.ncbi.nlm.nih.gov/articles/PMC...
November 28, 2025 at 7:07 PM
It's Fucose Friday 🔺, the best #glycotime of the week!
Fucose is commonly found as a glycan modification, but it can be linked directly to proteins as O-fucose 😎
Here ⬇️ O-fucosylation of TSR1 by POFUT2 in the ER stabilises the TSRs characteristic fold 🤩
pmc.ncbi.nlm.nih.gov/articles/PMC...
Fucose is commonly found as a glycan modification, but it can be linked directly to proteins as O-fucose 😎
Here ⬇️ O-fucosylation of TSR1 by POFUT2 in the ER stabilises the TSRs characteristic fold 🤩
pmc.ncbi.nlm.nih.gov/articles/PMC...
To wish our friend and main O-glycan 3D structure contributor extraordinaire @silviadandrea.bsky.social all the best with the submission of her PhD thesis tomorrow, today's 🥄🍬 is dedicated to sialic acid 💜 with a mini 🧵 about all the wonderful functions Silvia worked on
November 27, 2025 at 6:14 PM
To wish our friend and main O-glycan 3D structure contributor extraordinaire @silviadandrea.bsky.social all the best with the submission of her PhD thesis tomorrow, today's 🥄🍬 is dedicated to sialic acid 💜 with a mini 🧵 about all the wonderful functions Silvia worked on
Today we used Re-Glyco to rebuild human EPO from AF-P01588 with glycosylation selected from Lippold et al [10.1021/acs.analchem.0c01794] From the 3D structure we identified ideal locations for extra N-glycans, some of which are actually in NESP [10.1054/bjoc.2001.1746]
Super fun 3D edu #glycotime!
Super fun 3D edu #glycotime!
![title slide of the workshop held today for the Advance Pharmacology module at the University of Southampton (E. Fadda lecturer and coordinator) right-hand side in the bubble, human EPO (grey) with glycosylation reconstructed according to [10.1021/acs.analchem.0c01794] bound to the EPO receptor (cyan) in PDB 1CN4. Slide background is blue](https://cdn.bsky.app/img/feed_thumbnail/plain/did:plc:xorrvcukxonsyeoudfzmnmhz/bafkreiactex7lfbmup6a3e7ezk4rao6zq4zvnbpprgkvuk4buvghhbqy6a@jpeg)
November 26, 2025 at 3:28 PM
Today we used Re-Glyco to rebuild human EPO from AF-P01588 with glycosylation selected from Lippold et al [10.1021/acs.analchem.0c01794] From the 3D structure we identified ideal locations for extra N-glycans, some of which are actually in NESP [10.1054/bjoc.2001.1746]
Super fun 3D edu #glycotime!
Super fun 3D edu #glycotime!
1/2 Check out the page of your fav glycan in @glycosmos.bsky.social which also has all the 3D info our database[2] and a direct link to its page in GlycoShape. Makes it very easy to see how many 3D structures correspond to a single 2D structure! 😉
November 25, 2025 at 9:10 AM
1/2 Check out the page of your fav glycan in @glycosmos.bsky.social which also has all the 3D info our database[2] and a direct link to its page in GlycoShape. Makes it very easy to see how many 3D structures correspond to a single 2D structure! 😉
To welcome our new friends, first spoonful of sugar 🥄🍬
Glycan structures can be very complex and deceivingly similar, yet they have unique GlyTouCan IDs[1] that you can find by drawing the glycan you need in gb.glytoucan.org or in the glycoshape.org sugar drawer 1/3 🧵
Glycan structures can be very complex and deceivingly similar, yet they have unique GlyTouCan IDs[1] that you can find by drawing the glycan you need in gb.glytoucan.org or in the glycoshape.org sugar drawer 1/3 🧵
November 25, 2025 at 9:02 AM
To welcome our new friends, first spoonful of sugar 🥄🍬
Glycan structures can be very complex and deceivingly similar, yet they have unique GlyTouCan IDs[1] that you can find by drawing the glycan you need in gb.glytoucan.org or in the glycoshape.org sugar drawer 1/3 🧵
Glycan structures can be very complex and deceivingly similar, yet they have unique GlyTouCan IDs[1] that you can find by drawing the glycan you need in gb.glytoucan.org or in the glycoshape.org sugar drawer 1/3 🧵