Papers using the plugin

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Help us to complete this list and let us know if you have a published paper using the FoldX plugin for YASARA. We will be very grateful.

Zhang Z, Witham S, Petukh M, Moroy G, Miteva M, Ikeguchi Y, Alexov E.
A rational free energy-based approach to understanding and targeting disease-causing missense mutations.
J Am Med Inform Assoc. 2013 Feb 13.
PubMed PMID: 23408511

Houben AJ, van Wijk XM, van Meeteren LA, van Zeijl L, van de Westerlo EM, Hausmann J, Fish A, Perrakis A, van Kuppevelt TH, Moolenaar WH.
The polybasic insertion in autotaxin α confers specific binding to heparin and cell surface heparan sulfate proteoglycans.
J Biol Chem. 2013 Jan 4;288(1):510-9.
PubMed PMID: 23150666

Andrew AJ, Berndsen CE, Kao S, Strebel K.
The size and conservation of a coiled-coil structure in the ectodomain of human BST-2/tetherin is dispensable for inhibition of HIV-1 virion release.
J Biol Chem. 2012 Dec 28;287(53):44278-88.
PubMed PMID: 23152502

Carvalho DR, Brand GD, Brum JM, Takata RI, Speck-Martins CE, Pratesi R.
Analysis of novel ARG1 mutations causing hyperargininemia and correlation with arginase I activity in erythrocytes.
Gene. 2012 Nov 1;509(1):124-30.
PubMed PMID: 22959135

Skrt M, Benedik E, Podlipnik C, Ulrih NP.
Interactions of different polyphenols with bovine serum albumin using fluorescence quenching and molecular docking.
Food Chem. 2012 Dec 15;135(4):2418-24.
PubMed PMID: 22980822

Soleimani P, Barzegar A, Movafeghi A.
Phylogenetic study of SIVcpz MT145 virus based on proteome and genome analysis.
J Biomol Struct Dyn. 2012 Jul;30(3):328-37.
PubMed PMID: 22694058

Sullivan BJ, Nguyen T, Durani V, Mathur D, Rojas S, Thomas M, Syu T, Magliery TJ.
Stabilizing Proteins from Sequence Statistics: The Interplay of Conservation and Correlation in Triosephosphate Isomerase Stability.
J Mol Biol. 2012 May 1.
PubMed PMID: 22555051

Marusic J, Podlipnik C, Jevsevar S, Kuzman D, Vesnaver G, Lah J.
Recognition of Human Tumor Necrosis Factor α (TNF-α) by Therapeutic Antibody Fragment: ENERGETICS AND STRUCTURAL FEATURES.
J Biol Chem. 2012 Mar 9;287(11):8613-20.
PubMed PMID: 22262846

Culurgioni S, Munoz IG, Moreno A, Palacios A, Villate M, Palmero I, Montoya G, Blanco FJ.
The crystal structure of the inhibitor of growth 4 (ING4) dimerization domain reveals the functional organization of the ING family of chromatin binding proteins.
J Biol Chem. 2012 Feb 9.
PubMed PMID: 22334692

Narni-Mancinelli E, Jaeger BN, Bernat C, Fenis A, Kung S, De Gassart A, Mahmood S, Gut M, Heath SC, Estellé J, Bertosio E, Vely F, Gastinel LN, Beutler B, Malissen B, Malissen M, Gut IG, Vivier E, Ugolini S.
Tuning of natural killer cell reactivity by NKp46 and Helios calibrates T cell responses.
Science. 2012 Jan 20;335(6066):344-8.
PubMed PMID: 22267813

Vařecha M, Potěšilová M, Matula P, Kozubek M.
Endonuclease G interacts with histone H2B and DNA topoisomerase II alpha during apoptosis.
Mol Cell Biochem.2012 Apr;363(1-2):301-7.
PubMed PMID: 22160858.

Hurt AC, Leang SK, Speers DJ, Barr IG, Maurer-Stroh S.
Mutations I117V and I117M and oseltamivir sensitivity of pandemic (H1N1) 2009 viruses.
Emerg Infect Dis. 2012 Jan;18(1):109-12.
PubMed PMID: 22260817.

Gangwar RS, Shil P, Sapkal GN, Khan SA, Gore MM.
Induction of virus-specific neutralizing immune response against West Nile and Japanese encephalitis viruses by chimeric peptides representing T-helper and B-cell epitopes.
Virus Res. 2012 Jan;163(1):40-50.
PubMed PMID: 21889960.

Govindaraj RG, Manavalan B, Basith S, Choi S.
Comparative analysis of species-specific ligand recognition in Toll-like receptor 8 signaling: a hypothesis.
PLoS One. 2011;6(9):e25118.
PubMed PMID: 21949866

Alvarez-Rueda N, Fleury A, Morio F, Pagniez F, Gastinel L, Le Pape P.
Amino acid substitutions at the major insertion loop of Candida albicans sterol 14alpha-demethylase are involved in fluconazole resistance.
PLoS One. 2011;6(6):e21239.
PubMed PMID: 21698128

Kersse K, Lamkanfi M, Bertrand MJ, Vanden Berghe T, Vandenabeele P.
Interaction patches of procaspase-1 caspase recruitment domains (CARDs) are differently involved in procaspase-1 activation and receptor-interacting protein 2 (RIP2)-dependent nuclear factor κB signaling.
J Biol Chem. 2011 Oct 14;286(41):35874-82.
PubMed PMID: 21862576

de Beer A, Vivier MA.
Four plant defensins from an indigenous South African Brassicaceae species display divergent activities against two test pathogens despite high sequence similarity in the encoding genes.
BMC Res Notes. 2011 Oct 28;4(1):459.
PubMed PMID: 22032337

Catalano-Dupuy DL, Musumeci MA, López-Rivero A, Ceccarelli EA.
A highly stable plastidic-type ferredoxin-NADP(H) reductase in the pathogenic bacterium Leptospira interrogans.
PLoS One. 2011;6(10):e26736.
PubMed PMID: 22039544

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