Ornithine Carbamoyltransferase
(Created:
1 year, 5 months ago)Project Archive
Total model count : 3.

Uploaded Structure:  model_01.pdb ;
model_02.pdb ;
model_03.pdb 

Method:  QMEAN 

QMEAN Version:  3.0.3 

SEQRES:  >Target
MGGEALTLPKDLLDFSGYGPKELQALLDLAERLKRERYRGEDLKGKVLALLFEKPSLRTRTTLEVAMVHLGGHAVYLDQKQVGIGEREPVRDVAKNLERFVEGIAARVFRHETVEALARHAKVPVVNALSDRAHPLQALADLLTLKEVFGGLAGLEVAWVGDGNNVLNSLLEVAPLAGLKVRVATPKGYEPDPGLLKRANAFFTHDPKEAALGAHALYTDVWTSMGQEAERAKRLRDFQGFQVNGELLKLLRPEGVFLHCLPAHYGEETTEEAVHGPRSRVFDQAENRLHTAKAVLLTLLK


Results:  JSON 

QMEAN4 Value:
0.61
Sequence colored by local quality:
QMEAN4 Value:
1.06
Sequence colored by local quality:
QMEAN4 Value:
1.54
Sequence colored by local quality:
Reference for the QMEAN scoring function:
[1] Benkert, P., Biasini, M., Schwede, T. Toward the estimation of the
absolute quality of individual protein structure models.
Bioinformatics 27, 343350 (2011).
Reference for the QMEANDisCo scoring function:
[2] Studer, G., Rempfer, C., Waterhouse, A.M., Gumienny, G., Haas, J.,
Schwede, T. QMEANDisCo  distance constraints applied on model quality
estimation. Bioinformatics 36, 17651771 (2020).
Reference for the QMEANBrane scoring function:
[3] Studer, G., Biasini, M., Schwede, T. Assessing the local
structural quality of transmembrane protein models using
statistical potentials (QMEANBrane). Bioinformatics 30,
i50511 (2014).
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A single model method combining statistical potentials and agreement terms
in a linear manner
A single model method combining statistical potentials and agreement terms
with a distance constraints (DisCo) score. DisCo evaluates consistencies of
pairwise CACA distances from a model with constraints extracted from
homologous structures. All scores are combined using a neural network
trained to predict perresidue lDDT scores.
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 highresolution Xray 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.
QMEAN4 is a linear combination of four statistical potential terms.
It is trained to predict global lDDT score in range [0,1]. The value displayed
here is transformed into a Zscore to relate it with what one would expect
from high resolution Xray structures.
The QMEANDisCo global score is the average
perresidue score and the provided error estimate is based on global
QMEANDisCo scores estimated for a large set of models and represents
the root mean squared difference (i.e. standard deviation) between
QMEANDisCo global score and lDDT (the ground truth).
As the reliability of the prediction heavily depends on model size, the
provided error estimate is calculated based on models of similar size to
the input.