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Modelling Methods

The document describes generating structural models of human ABCB1 based on the mouse ABCB1 structure. Sequence alignment between human and mouse ABCB1 was performed, then 100 structural models of human ABCB1 were generated using Modeller based on the mouse structure. The best model was selected using DOPE scores for visualization and analysis. The work was supported by funding from the Austrian Science Fund and EU COST Action.

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22 views1 page

Modelling Methods

The document describes generating structural models of human ABCB1 based on the mouse ABCB1 structure. Sequence alignment between human and mouse ABCB1 was performed, then 100 structural models of human ABCB1 were generated using Modeller based on the mouse structure. The best model was selected using DOPE scores for visualization and analysis. The work was supported by funding from the Austrian Science Fund and EU COST Action.

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azmat
Copyright
© © All Rights Reserved
We take content rights seriously. If you suspect this is your content, claim it here.
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MATERIALS AND METHODS

Sequence identity between human and mouse ABCB1 is 88%. Sequences of human and mouse
ABCB1 were aligned using muscle [1]. Models of human ABCB1 were developed on the basis of
mouse ABCB1 (PDB ID: 4XWK) [2] used Modeller version 9.15 [3]. The automodel procedure was
applied to generate 100 models, ranked according to the DOPE score [4] and the best model used for
visualization.

ACKNOWLEDGMENTS
The financial support by the Austrian Science Fund (FWF), project F3509 to PC, and F3524 to TS as
well as the EU-sponsored COST Action CM1306 to TS is thankfully acknowledged.

REFERENCES
1) Edgar, R.C. Nucleic Acids Res 32(5), 1792-97
2) https://www.ncbi.nlm.nih.gov/pubmed/?term=27152359
2) Fiser, A., and A. Sali. 2003. MODELLER: Generation and refinement of homology-based protein
structure models. Methods Enzymol. 374:461-491.
3) Shen, M. Y., and A. Sali. 2006. Statistical potential for assessment and prediction of protein
structures. Protein Sci. 15:2507-2524.

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