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]] (which colors by confidence/pLDDT automatically), see [[Converting AlphaFold3 CIF to PDB]].
**Predicted models are in [[Mmcif format|mmCIF format]] only. When visualized in [http://firstglance.jmol.org FirstGlance in Jmol], coloring by confidence/pLDDT is automatic. [[Converting AlphaFold3 CIF to PDB|More information about .cif and FirstGlance]].
**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]].
**Chain ID assignments differ from those of empirical wwPDB files: see [[Chains_and_Chain_IDs#AlphaFold3_Chain_IDs|AlphaFold3 Chain IDs]].
**Chain ID assignments differ from those of empirical wwPDB files: see [[Chains_and_Chain_IDs#AlphaFold3_Chain_IDs|AlphaFold3 Chain IDs]].
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