## Examples

There are three examples one might look at:

*Reference for the QMEAN scoring function:*

[1] Benkert, P., Tosatto, S.C.E. and Schomburg, D. (2008). "QMEAN: A comprehensive scoring function
for model quality assessment." Proteins: Structure, Function, and Bioinformatics, 71(1):261-277.

*Reference for the QMEANBrane scoring function:*

[2] Studer, G., Biasini, M. and Schwede, T. (2014). "Assessing the local structural quality of
transmembrane protein models using statistical potentials(QMEANBrane)." Bioinformatics, 30(17):i505-11.

A single model method combining statistical potentials and agreement terms in a linear manner

Adding distance constraint score to QMEAN to improve local quality predictions.
Evaluated are consistencies of pairwise CA-CA distances from a model with constraints extracted from homologous structures

QMEANBrane is a combination of statistical potentials targeted at
local quality estimation of membrane protein models in their
naturally occurring oligomeric state: after identifying the
transmembrane region using an implicit solvation model, specifically
trained statistical potentials get applied on the different regions of a protein model

Reference sequence (SEQRES) of submitted protein model. This sequence is used for secondary structure and
solvent accessibility predictions. If not provided, the sequence gets directly extracted from the model.
See the help page for further input information.

The plot relates the obtained global QMEAN4 value to scores calculated from a set of high-resolution X-ray structures.

Local quality is either estimated using the raw QMEAN scoring function or one of the two
specialized functions QMEANBrane and QMEANDisCo. They all provide scores in range [0,1]
with one being good.

The value of the QMEAN4 is not affected by DisCo.