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Items: 1 to 20 of 87

2.

Selected-fit versus induced-fit protein binding: kinetic differences and mutational analysis.

Weikl TR, von Deuster C.

Proteins. 2009 Apr;75(1):104-10. doi: 10.1002/prot.22223.

PMID:
18798570
3.

The Role of Conformational Changes in Molecular Recognition.

Ahmad M, Helms V, Kalinina OV, Lengauer T.

J Phys Chem B. 2016 Mar 10;120(9):2138-44. doi: 10.1021/acs.jpcb.5b11593. Epub 2016 Mar 1.

PMID:
26901699
4.

Conformational selection is a dominant mechanism of ligand binding.

Vogt AD, Di Cera E.

Biochemistry. 2013 Aug 27;52(34):5723-9. doi: 10.1021/bi400929b. Epub 2013 Aug 15.

5.

The role of dynamic conformational ensembles in biomolecular recognition.

Boehr DD, Nussinov R, Wright PE.

Nat Chem Biol. 2009 Nov;5(11):789-96. doi: 10.1038/nchembio.232. Review. Erratum in: Nat Chem Biol. 2009 Dec;5(12):954.

6.

Conformational dynamics of an ATP-binding DNA aptamer: a single-molecule study.

Xia T, Yuan J, Fang X.

J Phys Chem B. 2013 Dec 5;117(48):14994-5003. doi: 10.1021/jp4099667. Epub 2013 Nov 22.

PMID:
24245799
7.
8.
9.

Conformational selection or induced fit? A critical appraisal of the kinetic mechanism.

Vogt AD, Di Cera E.

Biochemistry. 2012 Jul 31;51(30):5894-902. Epub 2012 Jul 16.

10.

A-form conformational motifs in ligand-bound DNA structures.

Lu XJ, Shakked Z, Olson WK.

J Mol Biol. 2000 Jul 21;300(4):819-40.

PMID:
10891271
11.

Assessing the suitability of the multilevel strategy for the conformational analysis of small ligands.

Juárez-Jiménez J, Barril X, Orozco M, Pouplana R, Luque FJ.

J Phys Chem B. 2015 Jan 22;119(3):1164-72. doi: 10.1021/jp506779y. Epub 2014 Oct 29.

PMID:
25319869
12.

Modeling correlated main-chain motions in proteins for flexible molecular recognition.

Zavodszky MI, Lei M, Thorpe MF, Day AR, Kuhn LA.

Proteins. 2004 Nov 1;57(2):243-61.

PMID:
15340912
13.

How conformational changes can affect catalysis, inhibition and drug resistance of enzymes with induced-fit binding mechanism such as the HIV-1 protease.

Weikl TR, Hemmateenejad B.

Biochim Biophys Acta. 2013 May;1834(5):867-73. doi: 10.1016/j.bbapap.2013.01.027. Epub 2013 Feb 1.

PMID:
23376188
14.

Conformational selection or induced fit: a flux description of reaction mechanism.

Hammes GG, Chang YC, Oas TG.

Proc Natl Acad Sci U S A. 2009 Aug 18;106(33):13737-41. doi: 10.1073/pnas.0907195106. Epub 2009 Jul 30.

15.

Evidence of conformational selection driving the formation of ligand binding sites in protein-protein interfaces.

Bohnuud T, Kozakov D, Vajda S.

PLoS Comput Biol. 2014 Oct 2;10(10):e1003872. doi: 10.1371/journal.pcbi.1003872. eCollection 2014 Oct.

16.

Target flexibility in molecular recognition.

McCammon JA.

Biochim Biophys Acta. 2005 Dec 30;1754(1-2):221-4. Epub 2005 Sep 12. Review.

PMID:
16181817
17.

Coupling Protein Side-Chain and Backbone Flexibility Improves the Re-design of Protein-Ligand Specificity.

Ollikainen N, de Jong RM, Kortemme T.

PLoS Comput Biol. 2015 Sep 23;11(9):e1004335. doi: 10.1371/journal.pcbi.1004335. eCollection 2015.

18.

Engineering Aspects of Olfaction.

Persaud KC.

In: Persaud KC, Marco S, Gutiérrez-Gálvez A, editors. Neuromorphic Olfaction. Boca Raton (FL): CRC Press/Taylor & Francis; 2013. Chapter 1.

19.

Carbohydrate-binding proteins: Dissecting ligand structures through solvent environment occupancy.

Gauto DF, Di Lella S, Guardia CM, Estrin DA, Martí MA.

J Phys Chem B. 2009 Jun 25;113(25):8717-24. doi: 10.1021/jp901196n.

PMID:
19485380
20.

Flexible docking allowing induced fit in proteins: insights from an open to closed conformational isomers.

Sandak B, Wolfson HJ, Nussinov R.

Proteins. 1998 Aug 1;32(2):159-74.

PMID:
9714156

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