How to predict structures with AlphaFold: Difference between revisions
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* 2024<ref name="af3" />: [https://alphafoldserver.com AlphaFoldServer.Com]. Using AlphaFold3, predicts homo- and hetro-multimers involving protein, DNA, RNA, ligands, and modified residues. Straightforward to use; Guide and FAQ provided. Predictions are templated without user control (see FAQ). Free for non-commercial use -- see [https://alphafoldserver.com/terms Terms of Service] and [https://alphafoldserver.com/output-terms Output Terms of Use]. From the DeepMind team<ref name="af3" />. | * 2024<ref name="af3" />: [https://alphafoldserver.com AlphaFoldServer.Com]. Using AlphaFold3, predicts homo- and hetro-multimers involving protein, DNA, RNA, ligands, and modified residues. Straightforward to use; Guide and FAQ provided. Predictions are templated without user control (see FAQ). Free for non-commercial use -- see [https://alphafoldserver.com/terms Terms of Service] and [https://alphafoldserver.com/output-terms Output Terms of Use]. From the DeepMind team<ref name="af3" />. | ||
**If you get <font color="red"><b>Invalid character</b></font> after pasting in your sequence, try removing the breaks between lines. | **If you get <font color="red"><b>Invalid character</b></font> after pasting in your sequence, try removing the breaks between lines. | ||
**Predicted models are in [[Mmcif format|mmCIF format]] only. To convert to [[PDB format]] for use in [[FirstGlance in Jmol|FirstGlance]], see [[Converting AlphaFold3 CIF to PDB]]. | **Predicted models are in [[Mmcif format|mmCIF format]] only. To convert to [[PDB format]] for use in [[FirstGlance in Jmol|FirstGlance]] (which colors by confidence/pLDDT automatically), see [[Converting AlphaFold3 CIF to PDB]]. | ||
**To easily obtain average [[pLDDT]] (predicted confidence) for a range of residues, see [[FirstGlance/How to get average pLDDT from AlphaFold models]]. | **To easily obtain average [[pLDDT]] (predicted confidence) for a range of residues, see [[FirstGlance/How to get average pLDDT from AlphaFold models]]. | ||
**See also [[#Visualizing Predicted Structures]] and [[User:Eric Martz/AlphaFold3 case studies|AlphaFold3 case studies]]. | **See also [[#Visualizing Predicted Structures]] and [[User:Eric Martz/AlphaFold3 case studies|AlphaFold3 case studies]]. | ||
