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By iterative TASSER assembly, I-TASSER is able to generate medium-resolution to high-resolution models for small proteins without using homologous templates. The computing cost is significantly lower than the corresponding atomic-based structure predictions.
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Wu S.T., Skolnick J., and Zhang Y. Ab initio modeling of small proteins by iterative TASSER simulations. BMC Biol 5 (2007) 17. By iterative TASSER assembly, I-TASSER is able to generate medium-resolution to high-resolution models for small proteins without using homologous templates. The computing cost is significantly lower than the corresponding atomic-based structure predictions.
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BMC Biol
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Wu, S.T.1
Skolnick, J.2
Zhang, Y.3
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Pathways to a protein folding intermediate observed in a 1-microsecond simulation in aqueous solution
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Duan Y., and Kollman P.A. Pathways to a protein folding intermediate observed in a 1-microsecond simulation in aqueous solution. Science 282 (1998) 740-744
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(1998)
Science
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Duan, Y.1
Kollman, P.A.2
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Simulation of folding of a small alpha-helical protein in atomistic detail using worldwide-distributed computing
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Zagrovic B., Snow C.D., Shirts M.R., and Pande V.S. Simulation of folding of a small alpha-helical protein in atomistic detail using worldwide-distributed computing. J Mol Biol 323 (2002) 927-937
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Zagrovic, B.1
Snow, C.D.2
Shirts, M.R.3
Pande, V.S.4
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49
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Physics-based protein-structure prediction using a hierarchical protocol based on the UNRES force field: assessment in two blind tests
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By using a reduced physics-based approach, UNRES is able to generate correct topologies for proteins up to 102 residues.
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Oldziej S., Czaplewski C., Liwo A., Chinchio M., Nanias M., Vila J.A., Khalili M., Arnautova Y.A., Jagielska A., Makowski M., et al. Physics-based protein-structure prediction using a hierarchical protocol based on the UNRES force field: assessment in two blind tests. Proc Natl Acad Sci U S A 102 (2005) 7547-7552. By using a reduced physics-based approach, UNRES is able to generate correct topologies for proteins up to 102 residues.
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(2005)
Proc Natl Acad Sci U S A
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Oldziej, S.1
Czaplewski, C.2
Liwo, A.3
Chinchio, M.4
Nanias, M.5
Vila, J.A.6
Khalili, M.7
Arnautova, Y.A.8
Jagielska, A.9
Makowski, M.10
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50
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Ab initio prediction of the three-dimensional structure of a de novo designed protein: a double-blind case study
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Klepeis J.L., Wei Y., Hecht M.H., and Floudas C.A. Ab initio prediction of the three-dimensional structure of a de novo designed protein: a double-blind case study. Proteins 58 (2005) 560-570
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(2005)
Proteins
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Klepeis, J.L.1
Wei, Y.2
Hecht, M.H.3
Floudas, C.A.4
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51
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Scoring function for automated assessment of protein structure template quality
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Zhang Y., and Skolnick J. Scoring function for automated assessment of protein structure template quality. Proteins 57 (2004) 702-710
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(2004)
Proteins
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Zhang, Y.1
Skolnick, J.2
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