peppr.RamachandranViolations

class peppr.RamachandranViolations

Check for the fraction of improbable \(\phi\)/\(\psi\) angles, based on known crystal structures in the Top8000 dataset [1].

References

[1]

https://doi.org/10.1002/prot.25039

evaluate(reference: AtomArray, pose: AtomArray) → float

Calculate the percentage of bonds that are outside acceptable ranges.

Parameters:

referenceAtomArray

Not used in this metric as we compare against ideal bond angles.

poseAtomArray

The structure to evaluate.

Returns:

float

Percentage of bonds outside acceptable ranges (0.0 to 1.0).

smaller_is_better() → bool

Whether as smaller value of this metric is considered a better prediction.

ABSTRACT: Must be overridden by subclasses.

Returns:

bool

If true, a smaller value of this metric is considered a better prediction. Otherwise, a larger value is considered a better prediction.