Phi value analysis (English Wikipedia)

Analysis of information sources in references of the Wikipedia article "Phi value analysis" in English language version.

refsWebsite

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22nih.gov

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15doi.org

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2harvard.edu

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2semanticscholar.org

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1pnas.org

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1figshare.com

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doi.org

Fersht, A. R. (2024). "From covalent transition states in chemistry to noncovalent in biology: from β- to Φ-value analysis of protein folding". Quarterly Reviews of Biophysics. 57 e4. doi:10.1017/S0033583523000045. PMID 38597675.
Rios, MA; Daneshi, M; Plaxco, KW (2005). "Experimental investigation of the frequency and substitution dependence of negative phi-values in two-state proteins". Biochemistry. 44 (36): 12160–7. doi:10.1021/bi0505621. PMID 16142914.
Zarrine-Asfar, Arash; Wallin, Stefan (July 22, 2008). "Theoretical and Experimental Demonstration of the Importance of Specific Nonnative Interactions in Protein Folding" (PDF). Proceedings of the National Academy of Sciences of the United States of America. 105 (29). Natural Academy of Sciences: 9999–10004. Bibcode:2008PNAS..105.9999Z. doi:10.1073/pnas.0801874105. PMC 2481363. PMID 18626019.
Matouschek, A; Kellis, JT; Serrano, L; Fersht, AR (1989). "Mapping the transition state and pathway of protein folding by protein engineering". Nature. 340 (6229): 122–6. Bibcode:1989Natur.340..122M. doi:10.1038/340122a0. PMID 2739734. S2CID 4302226.
Fersht, AR; Matouschek, A; Serrano, L (1992). "The folding of an enzyme I. Theory of protein engineering analysis of stability and pathway of protein folding". J Mol Biol. 224 (3): 771–82. doi:10.1016/0022-2836(92)90561-W. PMID 1569556.
Sosnick, TR; Dothager, RS; Krantz, BA (2004). "Differences in the folding transition state of ubiquitin indicated by $\varphi$ and $\psi$ analyses". Proc. Natl. Acad. Sci. USA. 101 (50): 17377–17382. doi:10.1073/pnas.0407683101. PMC 536030. PMID 15576508.
Krantz, BA; Dothager, RS; Sosnick, TR (March 2004). "Discerning the structure and energy of multiple transition states in protein folding using $\psi$ -analysis". J. Mol. Biol. 337 (2): 463–75. doi:10.1016/j.jmb.2004.01.018. PMID 15003460.
Krantz, BA; Sosnick, TR (2001). "Engineered metal binding sites map the heterogeneous folding landscape of a coiled coil". Nat. Struct. Biol. 8 (12): 1042–1047. doi:10.1038/nsb723. PMID 11694889. S2CID 940674.
Fersht, AR (2004). " $\Phi$ value versus $\psi$ analysis". Proc. Natl. Acad. Sci. USA. 101 (50): 17327–17328. doi:10.1073/pnas.0407863101. PMC 536033. PMID 15583125.
Wedemeyer, WJ; Welker, E; Narayan, M; Scheraga, HA (June 2000). "Disulfide bonds and protein folding" (PDF). Biochemistry. 39 (23): 7032. doi:10.1021/bi005111p. PMID 10841785.
Ervin, J; Gruebele, M (2002). "Quantifying protein folding transition states with phi-T". Journal of Biological Physics. 28 (23): 115–128. doi:10.1023/A:1019930203777. PMC 3456662. PMID 23345761.
Sanchez, IE; Kiefhaber, T (2003). "Origin of unusual phi-values in protein folding: evidence against specific nucleation sites". J. Mol. Biol. 334 (5): 1077–1085. doi:10.1016/j.jmb.2003.10.016. PMID 14643667.
Miguel; Los Rios, A. De; Muraidhara, B.K.; Wildes, David; Sosnick, Tobin R.; Marqusee, Susan; Wittung-Stafshede, Pernilla; Plaxco, Kevin W.; Ruczinski, Ingo (2006). "On the precision of experimentally determined protein folding rates and phi-values". Protein Science. 15 (3): 553–563. doi:10.1110/ps.051870506. PMC 2249776. PMID 16501226.
Fersht, A. R.; Sato, S (2004). "Phi-value analysis and the nature of protein-folding transition states". Proceedings of the National Academy of Sciences USA. 101 (21): 7976–81. doi:10.1073/pnas.0402684101. PMC 419542. PMID 15150406.
Dave, K; Jäger, M; Nguyen, H; Kelly, JW; Gruebele, M (2016). "High-Resolution Mapping of the Folding Transition State of a WW Domain". Journal of Molecular Biology. 428 (8): 115–128. doi:10.1016/j.jmb.2016.02.008. PMC 4835268. PMID 26880334.

figshare.com

Wedemeyer, WJ; Welker, E; Narayan, M; Scheraga, HA (June 2000). "Disulfide bonds and protein folding" (PDF). Biochemistry. 39 (23): 7032. doi:10.1021/bi005111p. PMID 10841785.

harvard.edu

ui.adsabs.harvard.edu

Zarrine-Asfar, Arash; Wallin, Stefan (July 22, 2008). "Theoretical and Experimental Demonstration of the Importance of Specific Nonnative Interactions in Protein Folding" (PDF). Proceedings of the National Academy of Sciences of the United States of America. 105 (29). Natural Academy of Sciences: 9999–10004. Bibcode:2008PNAS..105.9999Z. doi:10.1073/pnas.0801874105. PMC 2481363. PMID 18626019.
Matouschek, A; Kellis, JT; Serrano, L; Fersht, AR (1989). "Mapping the transition state and pathway of protein folding by protein engineering". Nature. 340 (6229): 122–6. Bibcode:1989Natur.340..122M. doi:10.1038/340122a0. PMID 2739734. S2CID 4302226.

nih.gov

pubmed.ncbi.nlm.nih.gov

Fersht, A. R. (2024). "From covalent transition states in chemistry to noncovalent in biology: from β- to Φ-value analysis of protein folding". Quarterly Reviews of Biophysics. 57 e4. doi:10.1017/S0033583523000045. PMID 38597675.
Rios, MA; Daneshi, M; Plaxco, KW (2005). "Experimental investigation of the frequency and substitution dependence of negative phi-values in two-state proteins". Biochemistry. 44 (36): 12160–7. doi:10.1021/bi0505621. PMID 16142914.
Zarrine-Asfar, Arash; Wallin, Stefan (July 22, 2008). "Theoretical and Experimental Demonstration of the Importance of Specific Nonnative Interactions in Protein Folding" (PDF). Proceedings of the National Academy of Sciences of the United States of America. 105 (29). Natural Academy of Sciences: 9999–10004. Bibcode:2008PNAS..105.9999Z. doi:10.1073/pnas.0801874105. PMC 2481363. PMID 18626019.
Matouschek, A; Kellis, JT; Serrano, L; Fersht, AR (1989). "Mapping the transition state and pathway of protein folding by protein engineering". Nature. 340 (6229): 122–6. Bibcode:1989Natur.340..122M. doi:10.1038/340122a0. PMID 2739734. S2CID 4302226.
Fersht, AR; Matouschek, A; Serrano, L (1992). "The folding of an enzyme I. Theory of protein engineering analysis of stability and pathway of protein folding". J Mol Biol. 224 (3): 771–82. doi:10.1016/0022-2836(92)90561-W. PMID 1569556.
Sosnick, TR; Dothager, RS; Krantz, BA (2004). "Differences in the folding transition state of ubiquitin indicated by $\varphi$ and $\psi$ analyses". Proc. Natl. Acad. Sci. USA. 101 (50): 17377–17382. doi:10.1073/pnas.0407683101. PMC 536030. PMID 15576508.
Krantz, BA; Dothager, RS; Sosnick, TR (March 2004). "Discerning the structure and energy of multiple transition states in protein folding using $\psi$ -analysis". J. Mol. Biol. 337 (2): 463–75. doi:10.1016/j.jmb.2004.01.018. PMID 15003460.
Krantz, BA; Sosnick, TR (2001). "Engineered metal binding sites map the heterogeneous folding landscape of a coiled coil". Nat. Struct. Biol. 8 (12): 1042–1047. doi:10.1038/nsb723. PMID 11694889. S2CID 940674.
Fersht, AR (2004). " $\Phi$ value versus $\psi$ analysis". Proc. Natl. Acad. Sci. USA. 101 (50): 17327–17328. doi:10.1073/pnas.0407863101. PMC 536033. PMID 15583125.
Wedemeyer, WJ; Welker, E; Narayan, M; Scheraga, HA (June 2000). "Disulfide bonds and protein folding" (PDF). Biochemistry. 39 (23): 7032. doi:10.1021/bi005111p. PMID 10841785.
Ervin, J; Gruebele, M (2002). "Quantifying protein folding transition states with phi-T". Journal of Biological Physics. 28 (23): 115–128. doi:10.1023/A:1019930203777. PMC 3456662. PMID 23345761.
Sanchez, IE; Kiefhaber, T (2003). "Origin of unusual phi-values in protein folding: evidence against specific nucleation sites". J. Mol. Biol. 334 (5): 1077–1085. doi:10.1016/j.jmb.2003.10.016. PMID 14643667.
Miguel; Los Rios, A. De; Muraidhara, B.K.; Wildes, David; Sosnick, Tobin R.; Marqusee, Susan; Wittung-Stafshede, Pernilla; Plaxco, Kevin W.; Ruczinski, Ingo (2006). "On the precision of experimentally determined protein folding rates and phi-values". Protein Science. 15 (3): 553–563. doi:10.1110/ps.051870506. PMC 2249776. PMID 16501226.
Fersht, A. R.; Sato, S (2004). "Phi-value analysis and the nature of protein-folding transition states". Proceedings of the National Academy of Sciences USA. 101 (21): 7976–81. doi:10.1073/pnas.0402684101. PMC 419542. PMID 15150406.
Dave, K; Jäger, M; Nguyen, H; Kelly, JW; Gruebele, M (2016). "High-Resolution Mapping of the Folding Transition State of a WW Domain". Journal of Molecular Biology. 428 (8): 115–128. doi:10.1016/j.jmb.2016.02.008. PMC 4835268. PMID 26880334.

ncbi.nlm.nih.gov

Zarrine-Asfar, Arash; Wallin, Stefan (July 22, 2008). "Theoretical and Experimental Demonstration of the Importance of Specific Nonnative Interactions in Protein Folding" (PDF). Proceedings of the National Academy of Sciences of the United States of America. 105 (29). Natural Academy of Sciences: 9999–10004. Bibcode:2008PNAS..105.9999Z. doi:10.1073/pnas.0801874105. PMC 2481363. PMID 18626019.
Sosnick, TR; Dothager, RS; Krantz, BA (2004). "Differences in the folding transition state of ubiquitin indicated by $\varphi$ and $\psi$ analyses". Proc. Natl. Acad. Sci. USA. 101 (50): 17377–17382. doi:10.1073/pnas.0407683101. PMC 536030. PMID 15576508.
Fersht, AR (2004). " $\Phi$ value versus $\psi$ analysis". Proc. Natl. Acad. Sci. USA. 101 (50): 17327–17328. doi:10.1073/pnas.0407863101. PMC 536033. PMID 15583125.
Ervin, J; Gruebele, M (2002). "Quantifying protein folding transition states with phi-T". Journal of Biological Physics. 28 (23): 115–128. doi:10.1023/A:1019930203777. PMC 3456662. PMID 23345761.
Miguel; Los Rios, A. De; Muraidhara, B.K.; Wildes, David; Sosnick, Tobin R.; Marqusee, Susan; Wittung-Stafshede, Pernilla; Plaxco, Kevin W.; Ruczinski, Ingo (2006). "On the precision of experimentally determined protein folding rates and phi-values". Protein Science. 15 (3): 553–563. doi:10.1110/ps.051870506. PMC 2249776. PMID 16501226.
Fersht, A. R.; Sato, S (2004). "Phi-value analysis and the nature of protein-folding transition states". Proceedings of the National Academy of Sciences USA. 101 (21): 7976–81. doi:10.1073/pnas.0402684101. PMC 419542. PMID 15150406.
Dave, K; Jäger, M; Nguyen, H; Kelly, JW; Gruebele, M (2016). "High-Resolution Mapping of the Folding Transition State of a WW Domain". Journal of Molecular Biology. 428 (8): 115–128. doi:10.1016/j.jmb.2016.02.008. PMC 4835268. PMID 26880334.

pnas.org

Zarrine-Asfar, Arash; Wallin, Stefan (July 22, 2008). "Theoretical and Experimental Demonstration of the Importance of Specific Nonnative Interactions in Protein Folding" (PDF). Proceedings of the National Academy of Sciences of the United States of America. 105 (29). Natural Academy of Sciences: 9999–10004. Bibcode:2008PNAS..105.9999Z. doi:10.1073/pnas.0801874105. PMC 2481363. PMID 18626019.

semanticscholar.org

api.semanticscholar.org

Matouschek, A; Kellis, JT; Serrano, L; Fersht, AR (1989). "Mapping the transition state and pathway of protein folding by protein engineering". Nature. 340 (6229): 122–6. Bibcode:1989Natur.340..122M. doi:10.1038/340122a0. PMID 2739734. S2CID 4302226.
Krantz, BA; Sosnick, TR (2001). "Engineered metal binding sites map the heterogeneous folding landscape of a coiled coil". Nat. Struct. Biol. 8 (12): 1042–1047. doi:10.1038/nsb723. PMID 11694889. S2CID 940674.