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Items: 1 to 20 of 90

1.

High-resolution modeling of transmembrane helical protein structures from distant homologues.

Chen KY, Sun J, Salvo JS, Baker D, Barth P.

PLoS Comput Biol. 2014 May 22;10(5):e1003636. doi: 10.1371/journal.pcbi.1003636. eCollection 2014 May.

2.

Comparison of three GPCR structural templates for modeling of the P2Y12 nucleotide receptor.

Deflorian F, Jacobson KA.

J Comput Aided Mol Des. 2011 Apr;25(4):329-38. doi: 10.1007/s10822-011-9423-3. Epub 2011 Apr 3.

3.

Status of GPCR modeling and docking as reflected by community-wide GPCR Dock 2010 assessment.

Kufareva I, Rueda M, Katritch V, Stevens RC, Abagyan R; GPCR Dock 2010 participants.

Structure. 2011 Aug 10;19(8):1108-26. doi: 10.1016/j.str.2011.05.012.

4.

Toward high-resolution prediction and design of transmembrane helical protein structures.

Barth P, Schonbrun J, Baker D.

Proc Natl Acad Sci U S A. 2007 Oct 2;104(40):15682-7. Epub 2007 Sep 28. Erratum in: Proc Natl Acad Sci U S A. 2007 Dec 18;104(51):20635.

5.
6.

Optimized method of G-protein-coupled receptor homology modeling: its application to the discovery of novel CXCR7 ligands.

Yoshikawa Y, Oishi S, Kubo T, Tanahara N, Fujii N, Furuya T.

J Med Chem. 2013 Jun 13;56(11):4236-51. doi: 10.1021/jm400307y. Epub 2013 May 29.

PMID:
23656360
7.

Structure-based studies of chemokine receptors.

Zhu L, Zhao Q, Wu B.

Curr Opin Struct Biol. 2013 Aug;23(4):539-46. doi: 10.1016/j.sbi.2013.05.003. Epub 2013 May 22. Review.

PMID:
23706951
8.

Modeling membrane proteins utilizing information from silent amino acid substitutions.

Kochva U, Leonov H, Arkin IT, Adams PD.

Curr Protoc Bioinformatics. 2004 Feb;Chapter 5:Unit5.3. doi: 10.1002/0471250953.bi0503s04.

PMID:
18428728
9.

SuperBiHelix method for predicting the pleiotropic ensemble of G-protein-coupled receptor conformations.

Bray JK, Abrol R, Goddard WA 3rd, Trzaskowski B, Scott CE.

Proc Natl Acad Sci U S A. 2014 Jan 7;111(1):E72-8. doi: 10.1073/pnas.1321233111. Epub 2013 Dec 16.

10.

Towards improved quality of GPCR models by usage of multiple templates and profile-profile comparison.

Latek D, Pasznik P, Carlomagno T, Filipek S.

PLoS One. 2013;8(2):e56742. doi: 10.1371/journal.pone.0056742. Epub 2013 Feb 28.

11.

MemBrain: improving the accuracy of predicting transmembrane helices.

Shen H, Chou JJ.

PLoS One. 2008 Jun 11;3(6):e2399. doi: 10.1371/journal.pone.0002399.

12.

Structure prediction of helical transmembrane proteins at two length scales.

Chen Z, Xu Y.

J Bioinform Comput Biol. 2006 Apr;4(2):317-33.

PMID:
16819786
13.

Transmembrane helix prediction using amino acid property features and latent semantic analysis.

Ganapathiraju M, Balakrishnan N, Reddy R, Klein-Seetharaman J.

BMC Bioinformatics. 2008;9 Suppl 1:S4. doi: 10.1186/1471-2105-9-S1-S4.

14.
15.

Novel approaches for targeting the adenosine A2A receptor.

Yuan G, Gedeon NG, Jankins TC, Jones GB.

Expert Opin Drug Discov. 2015 Jan;10(1):63-80. doi: 10.1517/17460441.2015.971006. Epub 2014 Oct 14. Review.

PMID:
25311639
16.

Alternative quality assessment strategy to compare performances of GPCR-ligand docking protocols: the human adenosine A(2A) receptor as a case study.

Ciancetta A, Cuzzolin A, Moro S.

J Chem Inf Model. 2014 Aug 25;54(8):2243-54. doi: 10.1021/ci5002857. Epub 2014 Jul 31.

PMID:
25046649
17.

Enhanced recognition of protein transmembrane domains with prediction-based structural profiles.

Cao B, Porollo A, Adamczak R, Jarrell M, Meller J.

Bioinformatics. 2006 Feb 1;22(3):303-9. Epub 2005 Nov 17.

PMID:
16293670
18.
19.

Strategies for improved modeling of GPCR-drug complexes: blind predictions of serotonin receptors bound to ergotamine.

Rodríguez D, Ranganathan A, Carlsson J.

J Chem Inf Model. 2014 Jul 28;54(7):2004-21. doi: 10.1021/ci5002235. Epub 2014 Jul 17.

PMID:
25030302
20.

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