7rgr
From Proteopedia
(Difference between revisions)
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==Lysozyme 056 from Deep neural language modeling== | ==Lysozyme 056 from Deep neural language modeling== | ||
| - | <StructureSection load='7rgr' size='340' side='right'caption='[[7rgr]]' scene=''> | + | <StructureSection load='7rgr' size='340' side='right'caption='[[7rgr]], [[Resolution|resolution]] 2.48Å' scene=''> |
== Structural highlights == | == Structural highlights == | ||
| - | <table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7RGR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7RGR FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[7rgr]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7RGR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7RGR FirstGlance]. <br> |
| - | </td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=7rgr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7rgr OCA], [https://pdbe.org/7rgr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7rgr RCSB], [https://www.ebi.ac.uk/pdbsum/7rgr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7rgr ProSAT]</span></td></tr> | + | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NHE:2-[N-CYCLOHEXYLAMINO]ETHANE+SULFONIC+ACID'>NHE</scene></td></tr> |
| + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=7rgr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7rgr OCA], [https://pdbe.org/7rgr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7rgr RCSB], [https://www.ebi.ac.uk/pdbsum/7rgr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7rgr ProSAT]</span></td></tr> | ||
</table> | </table> | ||
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
| + | Deep-learning language models have shown promise in various biotechnological applications, including protein design and engineering. Here we describe ProGen, a language model that can generate protein sequences with a predictable function across large protein families, akin to generating grammatically and semantically correct natural language sentences on diverse topics. The model was trained on 280 million protein sequences from >19,000 families and is augmented with control tags specifying protein properties. ProGen can be further fine-tuned to curated sequences and tags to improve controllable generation performance of proteins from families with sufficient homologous samples. Artificial proteins fine-tuned to five distinct lysozyme families showed similar catalytic efficiencies as natural lysozymes, with sequence identity to natural proteins as low as 31.4%. ProGen is readily adapted to diverse protein families, as we demonstrate with chorismate mutase and malate dehydrogenase. | ||
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| + | Large language models generate functional protein sequences across diverse families.,Madani A, Krause B, Greene ER, Subramanian S, Mohr BP, Holton JM, Olmos JL Jr, Xiong C, Sun ZZ, Socher R, Fraser JS, Naik N Nat Biotechnol. 2023 Jan 26. doi: 10.1038/s41587-022-01618-2. PMID:36702895<ref>PMID:36702895</ref> | ||
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| + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
| + | </div> | ||
| + | <div class="pdbe-citations 7rgr" style="background-color:#fffaf0;"></div> | ||
| + | == References == | ||
| + | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
| + | [[Category: Synthetic construct]] | ||
[[Category: Fraser JS]] | [[Category: Fraser JS]] | ||
[[Category: Greene ER]] | [[Category: Greene ER]] | ||
[[Category: Holton JM]] | [[Category: Holton JM]] | ||
[[Category: Olmos Jr JL]] | [[Category: Olmos Jr JL]] | ||
Revision as of 06:56, 8 February 2023
Lysozyme 056 from Deep neural language modeling
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