Pereira de Araujo AF - Search Results

1

Occurrence and evolutionary conservation analysis of α-helical cationic amphiphilic segments in the human proteome.

Costa ISD, Junot T, Silva FL, Felix W, Cardozo Fh JL, Pereira de Araujo AF, Pais do Amaral C, Gonçalves S, Santos NC, Leite JRSA, Bloch C Jr, Brand GD. Costa ISD, et al. Among authors: pereira de araujo af. FEBS J. 2024 Feb;291(3):547-565. doi: 10.1111/febs.16997. Epub 2023 Nov 20. FEBS J. 2024. PMID: 37945538

2

Sequence-dependent and -independent information in a combined random energy model for protein folding and coding.

Pereira de Araújo AF. Pereira de Araújo AF. Proteins. 2024 May;92(5):679-687. doi: 10.1002/prot.26658. Epub 2023 Dec 29. Proteins. 2024. PMID: 38158239

3

A sequence-compatible amount of native burial information is sufficient for determining the structure of small globular proteins.

Pereira de Araujo AF, Onuchic JN. Pereira de Araujo AF, et al. Proc Natl Acad Sci U S A. 2009 Nov 10;106(45):19001-4. doi: 10.1073/pnas.0910851106. Epub 2009 Oct 26. Proc Natl Acad Sci U S A. 2009. PMID: 19858496 Free PMC article.

4

Information-theoretic analysis and prediction of protein atomic burials: on the search for an informational intermediate between sequence and structure.

Rocha JR, van der Linden MG, Ferreira DC, Azevêdo PH, Pereira de Araújo AF. Rocha JR, et al. Among authors: pereira de araujo af. Bioinformatics. 2012 Nov 1;28(21):2755-62. doi: 10.1093/bioinformatics/bts512. Epub 2012 Aug 24. Bioinformatics. 2012. PMID: 22923297

5

Constrained Layer Assignment for the Protein Burial Folding Code Accounting for Chain Connectivity.

van der Linden MG, Ferreira DC, Pereira de Araújo AF. van der Linden MG, et al. Among authors: pereira de araujo af. J Phys Chem B. 2022 Aug 25;126(33):6159-6170. doi: 10.1021/acs.jpcb.2c03931. Epub 2022 Aug 11. J Phys Chem B. 2022. PMID: 35952378

6

Description of atomic burials in compact globular proteins by Fermi-Dirac probability distributions.

Gomes AL, de Rezende JR, Pereira de Araújo AF, Shakhnovich EI. Gomes AL, et al. Among authors: pereira de araujo af. Proteins. 2007 Feb 1;66(2):304-20. doi: 10.1002/prot.21137. Proteins. 2007. PMID: 17109406

7

Thermodynamics of interactions between amino acid side chains: experimental differentiation of aromatic-aromatic, aromatic-aliphatic, and aliphatic-aliphatic side-chain interactions in water.

Pereira de Araujo AF, Pochapsky TC, Joughin B. Pereira de Araujo AF, et al. Biophys J. 1999 May;76(5):2319-28. doi: 10.1016/S0006-3495(99)77389-3. Biophys J. 1999. PMID: 10233051 Free PMC article.

8

Entropy reduction effect imposed by hydrogen bond formation on protein folding cooperativity: evidence from a hydrophobic minimalist model.

Barbosa MA, Garcia LG, Pereira de Araújo AF. Barbosa MA, et al. Among authors: pereira de araujo af. Phys Rev E Stat Nonlin Soft Matter Phys. 2005 Nov;72(5 Pt 1):051903. doi: 10.1103/PhysRevE.72.051903. Epub 2005 Nov 1. Phys Rev E Stat Nonlin Soft Matter Phys. 2005. PMID: 16383641

9

Native atomic burials, supplemented by physically motivated hydrogen bond constraints, contain sufficient information to determine the tertiary structure of small globular proteins.

Pereira de Araújo AF, Gomes AL, Bursztyn AA, Shakhnovich EI. Pereira de Araújo AF, et al. Proteins. 2008 Feb 15;70(3):971-83. doi: 10.1002/prot.21571. Proteins. 2008. PMID: 17847091

10

Alternative hydrogen bond implementations produce opposite effects on collapse cooperativity of lattice homopolypeptide models.

Fleury GM, Barbosa MA, Pereira de Araújo AF. Fleury GM, et al. Among authors: pereira de araujo af. Phys Rev E Stat Nonlin Soft Matter Phys. 2007 Nov;76(5 Pt 1):051914. doi: 10.1103/PhysRevE.76.051914. Epub 2007 Nov 20. Phys Rev E Stat Nonlin Soft Matter Phys. 2007. PMID: 18233694

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