- Haloi, Nandan; Huang, Shan; et el. (2024) Interactive
computational and experimental approaches improve the sensitivity of
periplasmic binding protein-based nicotine biosensors for measurements
in biofluids; Protein Engineering, Design and Selection; Vol. 37;
gzae003; 10.1093/protein/gzae003
- Huang, Shan; Wang, Kaihang; et el. (2023) Genome
manipulation by guide-directed Argonaute cleavage; Nucleic Acids
Research; Vol. 51; No. 8; 4078-4085; PMCID PMC10164581; 10.1093/nar/gkad188
- Haloi, Nandan; Huang, Shan; et el. (2023) Interactive
computational and experimental approaches improve the sensitivity of
periplasmic binding protein-based nicotine biosensors for measurements
in biofluids; 10.1101/2023.01.16.524298
- Huang, Shan; Wang, Kaihang; et el. (2021) Genome
manipulation by guide-directed Argonaute cleavage; 10.1101/2021.11.17.469050
- Breunig, Stephanie; Chapman, Alex; et el. (2021) Modification
of Insulin Lispro by Incorporation of Non-canonical Proline
Residues; Protein Science; Vol. 30; No. S1; 89; 10.1002/pro.4191
- LaPelusa, Michael; Donoviel, Dorit; et el. (2021) Microbiome
for Mars: surveying microbiome connections to healthcare with
implications for long-duration human spaceflight, virtual workshop, July
13, 2020; Microbiome; Vol. 9; Art. No. 2; PMCID PMC7781430; 10.1186/s40168-020-00951-5
- Nisthal, Alex; Wang, Connie Y.; et el. (2019) Protein
stability engineering insights revealed by domain-wide comprehensive
mutagenesis; Proceedings of the National Academy of Sciences of the
United States of America; Vol. 116; No. 33; 16367-16377; PMCID
PMC6697890; 10.1073/pnas.1903888116
- Oki, Kenji; Lee, Frederick S.; et el. (2019) Attempts
to develop an enzyme converting DHIV to KIV; Protein Engineering,
Design and Selection; Vol. 32; No. 6; 261-270; 10.1093/protein/gzz042
- Ross, Matthew O.; MacMillan, Fraser; et el. (2019) Particulate
methane monooxygenase contains only mononuclear copper centers;
Science; Vol. 364; No. 6440; 566-570; PMCID PMC6664434; 10.1126/science.aav2572
- Wannier, Timothy M.; Gillespie, Sarah K.; et el. (2018) Monomerization
of Far-Red Fluorescent Proteins; Proceedings of the National Academy
of Sciences of the United States of America; Vol. 115; No. 48;
E11294-E11301; PMCID PMC6275547; 10.1101/162842
- Wang, Connie; Chang, Paul; et el. (2018) Protabank:
A Repository for Protein Design and Engineering Data; Protein
Science; Vol. 27; No. S1; 115; 10.1002/pro.3513
- Wang, Connie Y.; Chang, Paul M.; et el. (2018) ProtaBank:
A repository for protein design and engineering data; Protein
Science; Vol. 27; No. 6; 1113-1124; PMCID PMC5980626; 10.1002/pro.3406
- Wang, Connie; Chang, Paul; et el. (2018) PEBank:
A Comprehensive Database for Protein Engineering and Design;
Biophysical Journal; Vol. 114; No. 3; 411A; 10.1016/j.bpj.2017.11.2279
- Cahn, Jackson K. B.; Werlang, Caroline A.; et el. (2017) A
General Tool for Engineering the NAD/NADP Cofactor Preference of
Oxidoreductases; ACS Synthetic Biology; Vol. 6; No. 2; 326-333;
PMCID PMC8611728; 10.1021/acssynbio.6b00188
- de los Santos, Emmanuel L. C.; Meyerowitz, Joseph T.; et el. (2016)
Engineering
Transcriptional Regulator Effector Specificity using Computational
Design and In Vitro Rapid Prototyping: Developing a Vanillin Sensor;
ACS Synthetic Biology; Vol. 5; No. 4; 287-295; 10.1021/acssynbio.5b00090
- Li, Jian; Lawton, Thomas J.; et el. (2016) Cell-free
protein synthesis enables high yielding synthesis of an active
multicopper oxidase; Biotechnology Journal; Vol. 11; No. 2; 212-218;
10.1002/biot.201500030
- Mou, Yun; Yu, Jiun-Yann; et el. (2015) Computational
design of co-assembling protein–DNA nanowires; Nature; Vol. 525;
No. 7568; 230-233; 10.1038/nature14874
- Mou, Yun; Huang, Po-Ssu; et el. (2015) Computational
design and experimental verification of a symmetric protein
homodimer; Proceedings of the National Academy of Sciences; Vol.
112; No. 34; 10714-10719; PMCID PMC4553821; 10.1073/pnas.1505072112
- Mou, Yun; Huang, Po-Ssu; et el. (2015) Using
molecular dynamics simulations as an aid in the prediction of domain
swapping of computationally designed protein variants; Journal of
Molecular Biology; Vol. 427; No. 16; 2697-2706; 10.1016/j.jmb.2015.06.006
- Mayo, Stephen L. (2015) Bridging
the divide: A tale of the merger of computational chemistry and
structural biology in enzyme design
- Wannier, Timothy M.; Moore, Matthew M.; et el. (2015) Computational
Design of the β-Sheet Surface of a Red Fluorescent Protein Allows
Control of Protein Oligomerization; PLoS ONE; Vol. 10; No. 6; Art.
No. e0130582; PMCID PMC4468108; 10.1371/journal.pone.0130582
- Wannier, Timothy M. and Mayo, Stephen L. (2014) The
structure of a far-red fluorescent protein, AQ143, shows evidence in
support of reported red-shifting chromophore interactions; Protein
Science; Vol. 23; No. 8; 1148-1153; PMCID PMC4116662; 10.1002/pro.2498
- Blomberg, Rebecca; Kries, Hajo; et el. (2013) Precision
is essential for efficient catalysis in an evolved Kemp eliminase;
Nature; Vol. 503; No. 7476; 418-421; 10.1038/nature12623
- Jaru-Ampornpan, Peera; Liang, Fu-Cheng; et el. (2013) Mechanism
of an ATP-independent Protein Disaggregase. II. Distinct Molecular
Interactions Drive Multiple Steps During Aggregate Disassembly;
Journal of Biological Chemistry; Vol. 288; No. 19; 13431-13445; PMCID
PMC3650381; 10.1074/jbc.M113.462861
- Chitsaz, Mohsen and Mayo, Stephen L. (2013) GRID:
A high-resolution protein structure refinement algorithm; Journal of
Computational Chemistry; Vol. 34; No. 6; 445-450; 10.1002/jcc.23151
- Moore, Matthew M.; Oteng-Pabi, Samuel K.; et el. (2012) Recovery
of Red Fluorescent Protein Chromophore Maturation Deficiency through
Rational Design; PLoS ONE; Vol. 7; No. 12; Art. No. e52463; PMCID
PMC3527499; 10.1371/journal.pone.0052463
- Lee, Toni; Farrow, Mary; et el. (2012) Computational
Thermostable Cellulase Engineering for Enhanced Biofuel Production;
Protein Science; Vol. 21; No. S1; 71-72
- Berry, Alexandria; Privett, Heidi; et el. (2012) Designing
Conformational Control of Human Tissue Transglutaminase for Applications
in Huntington’s Disease Research; Protein Science; Vol. 21; No. S1;
153
- Wannier, Timothy; Moore, Matthew; et el. (2012) Engineering
Monomerization of Red Fluorescent Proteins Through Computational
Design; Protein Science; Vol. 21; No. S1; 144-145
- Padilla Araujo, Bernardo Sosa; Miller, Thomas; et el. (2012) In
Silico Screening of Computational Enzyme Designs; Protein Science;
Vol. 21; No. S1; 132
- Cahn, Jackson; Padilla Araujo, Bernardo Sosa; et el. (2012) Multi-State
Computational Design and Experimental Characterization of
Triosephosphate Isomerase Flexible Hinges; Protein Science; Vol. 21;
No. S1; 132
- Chitsaz, Mohsen and Mayo, Stephen (2012) Replica
Exchange Monte Carlo GRID: A novel high-resolution refinement
algorithm; Protein Science; Vol. 21; No. S1; 139
- Alvizo, Oscar; Mittal, Seema; et el. (2012) Structural,
kinetic, and thermodynamic studies of specificity designed HIV-1
protease; Protein Science; Vol. 21; No. 7; 1029-1041; PMCID
PMC3403440; 10.1002/pro.2086
- Chen, Mike M. Y.; Snow, Christopher D.; et el. (2012) Comparison
of random mutagenesis and semi-rational designed libraries for improved
cytochrome P450 BM3-catalyzed hydroxylation of small alkanes;
Protein Engineering, Design and Selection; Vol. 25; No. 4; 171-178; 10.1093/protein/gzs004
- Privett, Heidi K.; Kiss, Gert; et el. (2012) Iterative
approach to computational enzyme design; Proceedings of the National
Academy of Sciences of the United States of America; Vol. 109; No. 10;
3790-3795; PMCID PMC3309769; 10.1073/pnas.1118082108
- Lee, Toni M.; Farrow, Mary F.; et el. (2011) A
structural study of Hypocrea jecorina Cel5A; Protein Science; Vol.
20; No. 11; 1935-1940; PMCID PMC3267957; 10.1002/pro.730
- Keeffe, Jennifer R.; Gnanapragasam, Priyanthi N. P.; et el. (2011)
Designed
oligomers of cyanovirin-N show enhanced HIV neutralization;
Proceedings of the National Academy of Sciences of the United States of
America; Vol. 108; No. 34; 14079-14084; PMCID PMC3161612; 10.1073/pnas.1108777108
- Zhang, Xin; Lam, Vinh Q.; et el. (2011) Direct
visualization reveals dynamics of a transient intermediate during
protein assembly; Proceedings of the National Academy of Sciences of
the United States of America; Vol. 108; No. 16; 6450-6455; PMCID
PMC3081034; 10.1073/pnas.1019051108
- Hemmert, Andrew C.; Otto, Tamara C.; et el. (2011) Nerve
Agent Hydrolysis Activity Designed into a Human Drug Metabolism
Enzyme; PLoS ONE; Vol. 6; No. 3; Art. No. e17441; PMCID PMC3060870;
10.1371/journal.pone.0017441
- Chica, Roberto A.; Moore, Matthew M.; et el. (2010) Generation
of longer emission wavelength red fluorescent proteins using
computationally designed libraries; Proceedings of the National
Academy of Sciences of the United States of America; Vol. 107; No. 47;
20257-20262; PMCID PMC2996648; 10.1073/pnas.1013910107
- Allen, Benjamin D.; Nisthal, Alex; et el. (2010) Experimental
library screening demonstrates the successful application of
computational protein design to large structural ensembles;
Proceedings of the National Academy of Sciences of the United States of
America; Vol. 107; No. 46; 19838-19843; PMCID PMC2993350; 10.1073/pnas.1012985107
- Allen, Benjamin D. and Mayo, Stephen L. (2010) An
efficient algorithm for multistate protein design based on FASTER;
Journal of Computational Chemistry; Vol. 31; No. 5; 904-916; 10.1002/jcc.21375
- Crowhurst, Karin A. and Mayo, Stephen L. (2008) NMR-detected
conformational exchange observed in a computationally designed variant
of protein Gβ1; Protein Engineering, Design and Selection; Vol. 21;
No. 9; 577-587; 10.1093/protein/gzn035
- Alvizo, Oscar and Mayo, Stephen L. (2008) Evaluating
and optimizing computational protein design force fields using fixed
composition-based negative design; Proceedings of the National
Academy of Sciences of the United States of America; Vol. 105; No. 34;
12242-12247; PMCID PMC2516967; 10.1073/pnas.0805858105
- Vizcarra, Christina L.; Zhang, Naigong; et el. (2008) An
improved pairwise decomposable finite-difference Poisson-Boltzmann
method for computational protein design; Journal of Computational
Chemistry; Vol. 29; No. 7; 1153-1162; 10.1002/jcc.20878
- Huang, Po-Ssu; Love, John J.; et el. (2007) A
de novo designed protein-protein interface; Protein Science; Vol.
16; No. 12; 2770-2774; PMCID PMC2222823; 10.1110/ps.073125207
- Shah, Premal S.; Hom, Geoffrey K; et el. (2007) Full-sequence
computational design and solution structure of a thermostable protein
variant; Journal of Molecular Biology; Vol. 372; No. 1; 1-6; 10.1016/j.jmb.2007.06.032
- Plückthun, Andreas and Mayo, Stephen L. (2007) The
design of evolution and the evolution of design; Current Opinion in
Structural Biology; Vol. 17; No. 4; 451-453; 10.1016/j.sbi.2007.08.020
- Lassila, Jonathan Kyle; Keeffe, Jennifer R.; et el. (2007) Exhaustive
mutagenesis of six secondary active-site residues in Escherichia coli
chorismate mutase shows the importance of hydrophobic side chains and a
helix N-capping position for stability and catalysis; Biochemistry;
Vol. 46; No. 23; 6883-6891; 10.1021/bi700215x
- Choi, Eun Jung; Mao, Jessica; et el. (2007) Computational
design and biochemical characterization of maize nonspecific lipid
transfer protein variants for biosensor applications; Protein
Science; Vol. 16; No. 4; 582-588; PMCID PMC2203350; 10.1110/ps.062607007
- Zong, Chenghang; Wilson, Corey J.; et el. (2007) Establishing
the entatic state in folding metallated Pseudomonas aeruginosa
azurin; Proceedings of the National Academy of Sciences of the
United States of America; Vol. 104; No. 9; 3159-3164; PMCID PMC1805512;
10.1073/pnas.0611149104
- Treynor, Thomas P.; Vizcarra, Christina L.; et el. (2007) Computationally
designed libraries of fluorescent proteins evaluated by preservation and
diversity of function; Proceedings of the National Academy of
Sciences of the United States of America; Vol. 104; No. 1; 48-53; PMCID
PMC1765474; 10.1073/pnas.0609647103
- Alvizo, Oscar; Allen, Benjamin D.; et el. (2007) Computational
protein design promises to revolutionize protein engineering;
BioTechniques; Vol. 42; No. 1; 31-39; 10.2144/000112336
- Mena, Marco A.; Treynor, Thomas P.; et el. (2006) Blue
fluorescent proteins with enhanced brightness and photostability from a
structurally targeted library; Nature Biotechnology; Vol. 24;
No. 12; 1569-1571; 10.1038/nbt1264
- Lassila, Jonathan Kyle; Privett, Heidi K.; et el. (2006) Combinatorial
methods for small-molecule placement in computational enzyme design;
Proceedings of the National Academy of Sciences of the United States of
America; Vol. 103; No. 45; 16710-16715; PMCID PMC1636520; 10.1073/pnas.0607691103
- Shifman, Julia M.; Choi, Mee H.; et el. (2006) Ca2+/calmodulin-dependent
protein kinase II (CaMKII) is activated by calmodulin with two bound
calciums; Proceedings of the National Academy of Sciences of the
United States of America; Vol. 103; No. 38; 13968-13973; PMCID
PMC1599897; 10.1073/pnas.0606433103
- Zollars, Eric S.; Marshall, Shannon A.; et el. (2006) Simple
electrostatic model improves designed protein sequences; Protein
Science; Vol. 15; No. 8; 2014-2018; PMCID PMC2242593; 10.1110/ps.062105506
- Allen, Benjamin D. and Mayo, Stephen L. (2006) Dramatic
performance enhancements for the FASTER optimization algorithm;
Journal of Computational Chemistry; Vol. 27; No. 10; 1071-1075; 10.1002/jcc.20420
- Choi, Eun Jung and Mayo, Stephen L (2006) Generation
and analysis of proline mutants in protein G; Protein Engineering,
Design and Selection; Vol. 19; No. 6; 285-289; 10.1093/protein/gzl007
- Hom, Geoffrey K. and Mayo, Stephen L. (2006) A
search algorithm for fixed-composition protein design; Journal of
Computational Chemistry; Vol. 27; No. 3; 375-378; 10.1002/jcc.20346
- Vizcarra, Christina L. and Mayo, Stephen L. (2005) Electrostatics
in computational protein design; Current Opinion in Chemical
Biology; Vol. 9; No. 6; 622-626; 10.1016/j.cbpa.2005.10.014
- Huang, Po-Ssu; Love, John J.; et el. (2005) Adaptation
of a fast Fourier transform-based docking algorithm for protein
design; Journal of Computational Chemistry; Vol. 26; No. 12;
1222-1232; 10.1002/jcc.20252
- Oelschlaeger, Peter and Mayo, Stephen L. (2005) Hydroxyl
groups in the ββ sandwich of metallo-β-lactamases favor enzyme activity:
a computational protein design study; Journal of Molecular Biology;
Vol. 350; No. 3; 395-401; 10.1016/j.jmb.2005.04.044
- Marshall, Shannon A.; Vizcarra, Christina L.; et el. (2005) One-
and two-body decomposable Poisson-Boltzmann methods for protein design
calculations; Protein Science; Vol. 14; No. 5; 1293-1304; PMCID
PMC2253281; 10.1110/ps.041259105
- Lassila, Jonathan Kyle; Keeffe, Jennifer R.; et el. (2005) Computationally
designed variants of Escherichia coli chorismate mutase show altered
catalytic activity; Protein Engineering, Design and Selection; Vol.
18; No. 4; 161-163; 10.1093/protein/gzi015
- Hom, Geoffrey K.; Lassila, J. Kyle; et el. (2005) Dioxane
contributes to the altered conformation and oligomerization state of a
designed engrailed homeodomain variant; Protein Science; Vol. 14;
No. 4; 1115-1119; PMCID PMC2253454; 10.1110/ps.041277305
- Oelschlaeger, Peter; Mayo, Stephen L.; et el. (2005) Impact
of remote mutations on metallo-β-lactamase substrate specificity:
implications for the evolution of antibiotic resistance; Protein
Science; Vol. 14; No. 3; 765-774; PMCID PMC2279297; 10.1110/ps.041093405
- Shah, Premal S.; Hom, Geoffrey K.; et el. (2004) Preprocessing
of rotamers for protein design calculations; Journal of
Computational Chemistry; Vol. 25; No. 14; 1797-1800; 10.1002/jcc.20097
- Shukla, Ushma J.; Marino, Heather; et el. (2004) A
designed protein interface that blocks fibril formation; Journal of
the American Chemical Society; Vol. 126; No. 43; 13914-13915; 10.1021/ja0456858
- Shifman, Julia M. and Mayo, Stephen L. (2003) Exploring
the origins of binding specificity through the computational redesign of
calmodulin; Proceedings of the National Academy of Sciences of the
United States of America; Vol. 100; No. 23; 13274-13279; PMCID
PMC263780; 10.1073/pnas.2234277100
- Mooers, Blaine H. M.; Datta, Deepshikha; et el. (2003) Repacking
the Core of T4 lysozyme by automated design; Journal of Molecular
Biology; Vol. 332; No. 3; 741-756; 10.1016/S0022-2836(03)00856-8
- Lazar, Greg A.; Marshall, Shannon A.; et el. (2003) Designing
proteins for therapeutic applications; Current Opinion in Structural
Biology; Vol. 13; No. 4; 513-518; 10.1016/S0959-440X(03)00104-0
- Meyer, Michelle M.; Silberg, Jonathan J.; et el. (2003) Library
analysis of SCHEMA-guided protein recombination; Protein Science;
Vol. 12; No. 8; 1686-1693; PMCID PMC2323955; 10.1110/ps.0306603
- Gillespie, Blake; Vu, Dung M.; et el. (2003) NMR
and temperature-jump measurements of de novo designed proteins
demonstrate rapid folding in the absence of explicit selection for
kinetics; Journal of Molecular Biology; Vol. 330; No. 4; 813-819; 10.1016/S0022-2836(03)00616-8
- Bolon, Daniel N.; Marcus, Joshua S.; et el. (2003) Prudent
modeling of core polar residues in computational protein design;
Journal of Molecular Biology; Vol. 329; No. 3; 611-622; 10.1016/S0022-2836(03)00423-6
- Gordon, D. Benjamin; Hom, Geoffrey K.; et el. (2003) Exact
rotamer optimization for protein design; Journal of Computational
Chemistry; Vol. 24; No. 2; 232-243; 10.1002/jcc.10121
- Offredi, F.; Dubail, F.; et el. (2003) De
novo backbone and sequence design of an idealized α/β-barrel protein:
evidence of stable tertiary structure; Journal of Molecular Biology;
Vol. 325; No. 1; 163-174; 10.1016/S0022-2836(02)01206-8
- Shifman, Julia M. and Mayo, Stephen L. (2002) Modulating
calmodulin binding specificity through computational protein design;
Journal of Molecular Biology; Vol. 323; No. 3; 417-423; 10.1016/S0022-2836(02)00881-1
- Datta, Deepshikha and Mayo, Stephen L. (2002) A
designed apoplastocyanin variant that shows reversible folding;
Biochemical and Biophysical Research Communications; Vol. 296; No. 4;
988-990; 10.1016/S0006-291X(02)02037-5
- Desjarlais, John R. and Mayo, Stephen L. (2002) Engineering
and design computational protein design - Editorial overview;
Current Opinion in Structural Biology; Vol. 12; No. 4; 429-430; 10.1016/S0959-440X(02)00343-3
- Voigt, Christopher A.; Martinez, Carlos; et el. (2002) Protein
building blocks preserved by recombination; Nature Structural
Biology; Vol. 9; No. 7; 553-558; 10.1038/nsb805
- Datta, Deepshikha; Wang, Pin; et el. (2002) A
designed phenylalanyl-tRNA synthetase variant allows efficient in vivo
incorporation of aryl ketone functionality into proteins; Journal of
the American Chemical Society; Vol. 124; No. 20; 5652-5653; 10.1021/ja0177096
- Bolon, Daniel N.; Voigt, Christopher A.; et el. (2002) De
novo design of biocatalysts; Current Opinion in Chemical Biology;
Vol. 6; No. 2; 125-129; 10.1016/S1367-5931(02)00303-4
- Lassila, Kirsten S.; Datta, Deepshikha; et el. (2002) Evaluation
of the energetic contribution of an ionic network to beta-sheet
stability; Protein Science; Vol. 11; No. 3; 688-690; PMCID
PMC2373463; 10.1110/ps.23502
- Marshall, Shannon A.; Morgan, Chantal S.; et el. (2002) Electrostatics
significantly affect the stability of designed homeodomain variants;
Journal of Molecular Biology; Vol. 316; No. 1; 189-199; 10.1006/jmbi.2001.5326
- Bolon, Daniel N. and Mayo, Stephen L. (2001) Enzyme-like
proteins by computational design; Proceedings of the National
Academy of Sciences of the United States of America; Vol. 98; No. 25;
14274-14279; PMCID PMC64672; 10.1073/pnas.251555398
- Bolon, Daniel N. and Mayo, Stephen L. (2001) Polar
residues in the protein core of Escherichia coli thioredoxin are
important for fold specificity; Biochemistry; Vol. 40; No. 34;
10047-10053; 10.1021/bi010427y
- Sarisky, Catherine A. and Mayo, Stephen L. (2001) The
ββα fold: explorations in sequence space; Journal of Molecular
Biology; Vol. 307; No. 5; 1411-1418; 10.1006/jmbi.2000.4345
- Voigt, Christopher A.; Mayo, Stephen L.; et el. (2001) Computational
method to reduce the search space for directed protein evolution;
Proceedings of the National Academy of Sciences of the United States of
America; Vol. 98; No. 7; 3778-3783; PMCID PMC31129; 10.1073/pnas.051614498
- Ross, Scott A.; Sarisky, Catherine A.; et el. (2001) Designed
protein G core variants fold to native-like structures: sequence
selection by ORBIT tolerates variation in backbone specification;
Protein Science; Vol. 10; No. 2; 450-454; PMCID PMC2373933; 10.1110/ps.32501
- Marshall, Shannon A. and Mayo, Stephen L. (2001) Achieving
stability and conformational specificity in designed proteins via binary
patterning; Journal of Molecular Biology; Vol. 305; No. 3; 619-631;
10.1006/jmbi.2000.4319
- Voigt, Christopher A.; Mayo, Stephen L.; et el. (2001) Computationally
Focusing the Directed Evolution of Proteins; Journal of Cellular
Biochemistry; Vol. 84; No. S37; 58-63; 10.1002/jcb.10066
- Shimaoka, Motomu; Shifman, Julia M.; et el. (2000) Computational
design of an integrin I domain stabilized in the open high affinity
conformation; Nature Structural Biology; Vol. 7; No. 8; 674-678; 10.1038/77978
- Pierce, Niles A.; Spriet, Jan A.; et el. (2000) Conformational
splitting: a more powerful criterion for dead-end elimination;
Journal of Computational Chemistry; Vol. 21; No. 11; 999-1009; 10.1002/1096-987X(200008)21:11<999::AID-JCC9>3.0.CO;2-A
- Strop, Pavel; Marinescu, Andrei M.; et el. (2000) Structure
of a protein G helix variant suggests the importance of helix propensity
and helix dipole interactions in protein design; Protein Science;
Vol. 9; No. 7; 1391-1394; PMCID PMC2144681; 10.1110/ps.9.7.1391
- Voigt, Christopher A.; Gordon, D. Benjamin; et el. (2000) Trading
accuracy for speed: a quantitative comparison of search algorithms in
protein sequence design; Journal of Molecular Biology; Vol. 299;
No. 3; 789-803; 10.1006/jmbi.2000.3758
- Street, Arthur G.; Datta, Deepshikha; et el. (2000) Designing
protein β-sheet surfaces by Z-score optimization; Physical Review
Letters; Vol. 84; No. 21; 5010-5013; 10.1103/PhysRevLett.84.5010
- Strop, Pavel and Mayo, Stephen L. (2000) Contribution
of surface salt bridges to protein stability; Biochemistry; Vol. 39;
No. 6; 1251-1255; 10.1021/bi992257j
- Gordon, D. Benjamin and Mayo, Stephen
- Branch-and-terminate:
a combinatorial optimization algorithm for protein design;
Structure; Vol. 7; No. 9; 1089-1098; 10.1016/S0969-2126(99)80176-2
- Street, Arthur G. and Mayo, Stephen L. (1999) Intrinsic
β-sheet propensities result from van der Waals interactions between side
chains and the local backbone; Proceedings of the National Academy
of Sciences of the United States of America; Vol. 96; No. 16; 9074-9076;
PMCID PMC17734
- Gordon, D. Benjamin; Marshall, Shannon A.; et el. (1999) Energy
functions for protein design; Current Opinion in Structural Biology;
Vol. 9; No. 4; 509-513; 10.1016/S0959-440X(99)80072-4
- Street, Arthur G. and Mayo, Stephen L. (1999) Computational
protein design; Structure; Vol. 7; No. 5; R105-R109; 10.1016/S0969-2126(99)80062-8
- Strop, Pavel and Mayo, Stephen L. (1999) Rubredoxin
Variant Folds without Iron; Journal of the American Chemical
Society; Vol. 121; No. 11; 2341-2345; 10.1021/ja9834780
- Street, Arthur G. and Mayo, Stephen L. (1998) Pairwise
calculation of protein solvent-accessible surface areas; Folding and
Design; Vol. 3; No. 4; 253-258; 10.1016/S1359-0278(98)00036-4
- Mayo, Stephen L. (1998) Duplicate
Publication; Science; Vol. 280; No. 5371; 1815; 10.1126/science.280.5371.1815h
- Malakauskas, Sandra M. and Mayo, Stephen L. (1998) Design,
structure and stability of a hyperthermophilic protein variant;
Nature Structural Biology; Vol. 5; No. 6; 470-475; 10.1038/nsb0698-470
- Bökenkamp, Dirk; Desai, Amish; et el. (1998) Microfabricated
Silicon Mixers for Submillisecond Quench-Flow Analysis; Analytical
Chemistry; Vol. 70; No. 2; 232-236; 10.1021/ac9708250
- Dahiyat, Bassil I.; Sarisky, Catherine A.; et el. (1997) De
novo protein design: towards fully automated sequence selection;
Journal of Molecular Biology; Vol. 273; No. 4; 789-796; 10.1006/jmbi.1997.1341
- Dahiyat, Bassil I. and Mayo, Stephen L. (1997) De
novo protein design: fully automated sequence selection; Science;
Vol. 278; No. 5335; 82-87; 10.1126/science.278.5335.82
- Dahiyat, Bassil I. and Mayo, Stephen L. (1997) Probing the
role of packing specificity in protein design; Proceedings of the
National Academy of Sciences of the United States of America; Vol. 94;
No. 19; 10172-10177; PMCID PMC23334
- Morgan, Chantal S.; Holton, James M.; et el. (1997) Circular
dichroism determination of class I MHC-peptide equilibrium dissociation
constants; Protein Science; Vol. 6; No. 8; 1771-1773; PMCID
PMC2143769; 10.1002/pro.5560060819
- Su, Alyce and Mayo, Stephen L. (1997) Coupling
backbone flexibility and amino acid sequence selection in protein
design; Protein Science; Vol. 6; No. 8; 1701-1707; PMCID PMC2143777;
10.1002/pro.5560060810
- Dahiyat, Bassil I.; Gordon, D. Benjamin; et el. (1997) Automated
design of the surface positions of protein helices; Protein Science;
Vol. 6; No. 6; 1333-1337; PMCID PMC2143725; 10.1002/pro.5560060622
- Desai, Amish; Bökenkamp, Dirk; et el. (1997) Microfluidic
sub-millisecond mixers for the study of chemical reaction kinetics;
ISBN 0-7803-3829-4; Transducers ’97: Digest of Technical Papers; IEEE:
Piscataway, NJ; 167-170; 10.1109/SENSOR.1997.613609
- Dahiyat, Bassil I. and Mayo, Stephen L. (1996) Protein
design automation; Protein Science; Vol. 5; No. 5; 895-903; PMCID
PMC2143401; 10.1002/pro.5560050511
- Dahiyat, Bassil I.; Meade, Thomas J.; et el. (1996) Site-specific
modification of α-helical peptides with electron donors and
acceptors; Inorganica Chimica Acta; Vol. 243; No. 1-2; 207-212; 10.1016/0020-1693(95)04909-6
- Su, Alyce; Mager, Sela; et el. (1996) A
multi-substrate single-file model for ion-coupled transporters;
Biophysical Journal; Vol. 70; No. 2; 762-777; PMCID PMC1224976; 10.1016/S0006-3495(96)79616-9
- Qian, Hong; Mayo, Stephen L.; et el. (1994) Protein
hydrogen exchange in denaturant: quantitative analysis by a two-process
model; Biochemistry; Vol. 33; No. 27; 8167-8171; 10.1021/bi00193a001
- Mayo, Stephen L. and Baldwin, Robert L. (1993) Guanidinium
chloride induction of partial unfolding in amide proton exchange in
RNase A; Science; Vol. 262; No. 5135; 873-876; 10.1126/science.8235609
- Mayo, Stephen L.; Olafson, Barry D.; et el. (1990) DREIDING:
A generic force field for molecular simulations; Journal of Physical
Chemistry; Vol. 94; No. 26; 8897-8909; 10.1021/j100389a010
- Bowler, Bruce E.; Meade, Thomas J.; et el. (1989) Long-range
electron transfer in structurally engineered pentaammineruthenium
(histidine-62) cytochrome c; Journal of the American Chemical
Society; Vol. 111; No. 23; 8757-8759; 10.1021/ja00205a049
- Maryanoff, Bruce E.; McComsey, David F.; et el. (1989) Stereochemical
studies on protonated bridgehead amines. ^1H NMR determination of cis
and trans B-C ring-fused structures for salts of hexahydropyrrolo
[2,1-a] isoquinolines and related C ring homologs. Capture of unstable
ring-fused structures in the solid state; Journal of the American
Chemical Society; Vol. 111; No. 7; 2487-2496; 10.1021/ja00189a020
- Haddon, R. C.; Chichester-Hicks, S. V.; et el. (1988) Phenalene-phosphazene
complexes: effect of exocyclic charge densities on the
cyclotriphosphazene ring system; Inorganic Chemistry; Vol. 27;
No. 11; 1911-1915; 10.1021/ic00284a019
- Axup, Andrew W.; Albin, Michael; et el. (1988) Distance
dependence of photoinduced long-range electron transfer in
zinc/ruthenium-modified myoglobins; Journal of the American Chemical
Society; Vol. 110; No. 2; 435-439; 10.1021/ja00210a020
- Mayo, Stephen L.; Ellis, Walther R., Jr.; et el. (1986) Long-range
electron transfer in heme proteins; Science; Vol. 233; No. 4767;
948-952; 10.1126/science.3016897
- Brunschwig, Bruce S.; DeLaive, Patricia J.; et el. (1985) Kinetics
and mechanisms of electron transfer between blue copper proteins and
electronically excited chromium and ruthenium polypyridine
complexes; Inorganic Chemistry; Vol. 24; No. 23; 3743-3749; 10.1021/ic00217a010
- Haddon, R. C.; Chichester, S. V.; et el. (1985) Direct
Amination of 9-Hydroxy-1-oxophenalene to Produce 9-Amino-1-oxophenalene
and Related Compounds; Synthesis-Stuttgart; Vol. 1985; No. 6-7;
639-641; 10.1055/s-1985-34145
- Bemis, Guy W.; Whittle, Robert R.; et el. (1984) 1,3,4,6-Tetramethyl-1,4-dihydro-1,2,4,5-tetrazine,
C_6H_(12)N_4; Acta Crystallographica Section C; Vol. 40; No. 12;
2076-2078; 10.1107/S0108270184010684