How to predict structures with AlphaFold: Difference between revisions
From Proteopedia
Jump to navigationJump to search
Eric Martz (talk | contribs) |
Eric Martz (talk | contribs) |
||
| Line 38: | Line 38: | ||
Each residue has an estimated reliability of its position (0-100) in the PDB [[temperature]] column. BEWARE that high values mean high confidence, and low values mean low confidence. This is the INVERSE of [[temperature|crystallographic temperature values]], where low values are good and high values are bad. | Each residue has an estimated reliability of its position (0-100) in the PDB [[temperature]] column. BEWARE that high values mean high confidence, and low values mean low confidence. This is the INVERSE of [[temperature|crystallographic temperature values]], where low values are good and high values are bad. | ||
[[FirstGlance in Jmol]] version 3.7 (when released) will automatically color uploaded AlphaFold models by estimated reliability per residue ('''{{Font color|blue|blue for high confidence}}, {{Font color|red|red for low confidence}}'''. | [[FirstGlance in Jmol]] version 3.7 (when released) will automatically color uploaded AlphaFold models by estimated reliability per residue ('''{{Font color|blue|blue for high confidence}}, {{Font color|red|red for low confidence}}'''). | ||
Some models have high confidence in a folded [[domain]], and low confidence in a segment that is not part of a compact domain. Low-confidence segments may be [[Intrinsically_Disordered_Protein|intrinsically disordered]]. It is useful to compare [[Intrinsically_Disordered_Protein#Protein_disorder_predictors|predictions of disorder]] with AlphaFold reliability estimates. | Some models have high confidence in a folded [[domain]], and low confidence in a segment that is not part of a compact domain. Low-confidence segments may be [[Intrinsically_Disordered_Protein|intrinsically disordered]]. It is useful to compare [[Intrinsically_Disordered_Protein#Protein_disorder_predictors|predictions of disorder]] with AlphaFold reliability estimates. | ||
