Vikram Khipple Mulligan
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Explore the profile of Vikram Khipple Mulligan including associated specialties, affiliations and a list of published articles.
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30
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1489
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Recent Articles
11.
Mulligan V, Workman S, Sun T, Rettie S, Li X, Worrall L, et al.
Proc Natl Acad Sci U S A
. 2021 Mar;
118(12).
PMID: 33723038
The rise of antibiotic resistance calls for new therapeutics targeting resistance factors such as the New Delhi metallo-β-lactamase 1 (NDM-1), a bacterial enzyme that degrades β-lactam antibiotics. We present structure-guided...
12.
Mulligan V, Kang C, Sawaya M, Rettie S, Li X, Antselovich I, et al.
Protein Sci
. 2020 Oct;
29(12):2433-2445.
PMID: 33058266
Cyclic symmetry is frequent in protein and peptide homo-oligomers, but extremely rare within a single chain, as it is not compatible with free N- and C-termini. Here we describe the...
13.
Leman J, Weitzner B, Lewis S, Adolf-Bryfogle J, Alam N, Alford R, et al.
Nat Methods
. 2020 Jun;
17(7):665-680.
PMID: 32483333
The Rosetta software for macromolecular modeling, docking and design is extensively used in laboratories worldwide. During two decades of development by a community of laboratories at more than 60 institutions,...
14.
Leman J, Weitzner B, Renfrew P, Lewis S, Moretti R, Watkins A, et al.
PLoS Comput Biol
. 2020 May;
16(5):e1007507.
PMID: 32365137
Many scientific disciplines rely on computational methods for data analysis, model generation, and prediction. Implementing these methods is often accomplished by researchers with domain expertise but without formal training in...
15.
Langan R, Boyken S, Ng A, Samson J, Dods G, Westbrook A, et al.
Nature
. 2019 Jul;
572(7768):205-210.
PMID: 31341284
Allosteric regulation of protein function is widespread in biology, but is challenging for de novo protein design as it requires the explicit design of multiple states with comparable free energies....
16.
Chen Z, Boyken S, Jia M, Busch F, Flores-Solis D, Bick M, et al.
Nature
. 2018 Dec;
565(7737):106-111.
PMID: 30568301
Specificity of interactions between two DNA strands, or between protein and DNA, is often achieved by varying bases or side chains coming off the DNA or protein backbone-for example, the...
17.
Mironov V, Alexeev Y, Mulligan V, Fedorov D
J Comput Chem
. 2018 Oct;
40(2):297-309.
PMID: 30368851
The alanine dipeptide is a standard system to model dihedral angles in proteins. It is shown that obtaining the Ramachandran plot accurately is a hard problem because of many local...
18.
Lu P, Min D, DiMaio F, Wei K, Vahey M, Boyken S, et al.
Science
. 2018 Mar;
359(6379):1042-1046.
PMID: 29496880
The computational design of transmembrane proteins with more than one membrane-spanning region remains a major challenge. We report the design of transmembrane monomers, homodimers, trimers, and tetramers with 76 to...
19.
Hosseinzadeh P, Bhardwaj G, Mulligan V, Shortridge M, Craven T, Pardo-Avila F, et al.
Science
. 2017 Dec;
358(6369):1461-1466.
PMID: 29242347
Mixed-chirality peptide macrocycles such as cyclosporine are among the most potent therapeutics identified to date, but there is currently no way to systematically search the structural space spanned by such...
20.
Dang B, Wu H, Mulligan V, Mravic M, Wu Y, Lemmin T, et al.
Proc Natl Acad Sci U S A
. 2017 Oct;
114(41):10852-10857.
PMID: 28973862
The folding of natural proteins typically relies on hydrophobic packing, metal binding, or disulfide bond formation in the protein core. Alternatively, a 3D structure can be defined by incorporating a...