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Volumn 7, Issue , 2006, Pages

Novel methods for secondary structure determination using low wavelength (VUV) circular dichroism spectroscopic data

Author keywords

[No Author keywords available]

Indexed keywords

CIRCULAR DICHROISM DATA; PRECISE MEASUREMENTS; PREDICTION ACCURACY; PROTEIN CONCENTRATIONS; PROTEIN SECONDARY STRUCTURE; SECONDARY STRUCTURES; SPECTRAL MAGNITUDES; VACUUM ULTRAVIOLETS;

EID: 33845267726     PISSN: 14712105     EISSN: 14712105     Source Type: Journal    
DOI: 10.1186/1471-2105-7-507     Document Type: Article
Times cited : (31)

References (30)
  • 1
    • 1642546383 scopus 로고    scopus 로고
    • Computation and analysis of protein circular dichroism spectra
    • Sreerama N, Woody RW: Computation and analysis of protein circular dichroism spectra. Meth Enzymol 2004, 383:318-351.
    • (2004) Meth Enzymol , vol.383 , pp. 318-351
    • Sreerama, N.1    Woody, R.W.2
  • 2
    • 3242877618 scopus 로고    scopus 로고
    • DICHROWEB, An online server for protein secondary structure analyses from circular dichroism spectroscopic data
    • Whitmore L, Wallace BA: DICHROWEB, An online server for protein secondary structure analyses from circular dichroism spectroscopic data. Nucleic Acids Res 2004, 32:668-673 [http://www.cryst.bbk.ac.uk/cdweb/ html/home.html].
    • (2004) Nucleic Acids Res , vol.32 , pp. 668-673
    • Whitmore, L.1    Wallace, B.A.2
  • 3
    • 0023927904 scopus 로고
    • Identification of structural motifs from protein coordinate data: Secondary structure and first-level supersecondary structure
    • Richards FM, Kundrot CE: Identification of structural motifs from protein coordinate data: secondary structure and first-level supersecondary structure. Proteins: Sruct Funct Genet 1988, 3:71-84.
    • (1988) Proteins: Sruct Funct Genet , vol.3 , pp. 71-84
    • Richards, F.M.1    Kundrot, C.E.2
  • 4
    • 0020997912 scopus 로고
    • Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features
    • Kabsch W, Sander C: Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features. Biopolymers 1983, 22:2577-2637.
    • (1983) Biopolymers , vol.22 , pp. 2577-2637
    • Kabsch, W.1    Sander, C.2
  • 5
    • 0029619259 scopus 로고
    • Knowledge-based protein secondary structure assignment
    • Frishman D, Argos P: Knowledge-based protein secondary structure assignment. Proteins: Struct Funct Genet 1995, 23:566-579.
    • (1995) Proteins: Struct Funct Genet , vol.23 , pp. 566-579
    • Frishman, D.1    Argos, P.2
  • 6
    • 0033562619 scopus 로고    scopus 로고
    • Assigning secondary structure from protein coordinate data
    • King SM, Johnson WC Jr: Assigning secondary structure from protein coordinate data. Prot Struct Func Gen 1999, 35:313-320.
    • (1999) Prot Struct Func Gen , vol.35 , pp. 313-320
    • King, S.M.1    Johnson Jr., W.C.2
  • 7
    • 28444482398 scopus 로고    scopus 로고
    • Bioinformatics analyses of circular dichroism protein reference databases
    • Janes RW: Bioinformatics analyses of circular dichroism protein reference databases. Bioinformatics 2005, 21:4230-4239.
    • (2005) Bioinformatics , vol.21 , pp. 4230-4239
    • Janes, R.W.1
  • 8
    • 0034345294 scopus 로고    scopus 로고
    • Synchrotron radiation circular dichroism spectroscopy as a tool for investigating protein structures
    • Wallace BA: Synchrotron radiation circular dichroism spectroscopy as a tool for investigating protein structures. J Synch Rod 2000, 7:289-295.
    • (2000) J Synch Rod , vol.7 , pp. 289-295
    • Wallace, B.A.1
  • 9
    • 33747855587 scopus 로고    scopus 로고
    • A reference database for circular dichroism spectroscopy covering fold and secondary structure space
    • Lees JG, Miles AJ, Wien F, Wallace BA: A reference database for circular dichroism spectroscopy covering fold and secondary structure space. Bioinformatics 2006, 22:1955-1962.
    • (2006) Bioinformatics , vol.22 , pp. 1955-1962
    • Lees, J.G.1    Miles, A.J.2    Wien, F.3    Wallace, B.A.4
  • 10
    • 0035478472 scopus 로고    scopus 로고
    • Synchrotron radiation circular dichroism spectroscopy of proteins: Secondary structure, fold recognition and structural genomics
    • Wallace BA, Janes RW: Synchrotron radiation circular dichroism spectroscopy of proteins: Secondary structure, fold recognition and structural genomics. Curr Opin Chem Biol 2001, 5:567-571.
    • (2001) Curr Opin Chem Biol , vol.5 , pp. 567-571
    • Wallace, B.A.1    Janes, R.W.2
  • 11
    • 33644873189 scopus 로고    scopus 로고
    • Synchrotron radiation circular dichroism spectroscopy of proteins and applications in structural and functional genomics
    • Miles AJ, Wallace BA: Synchrotron radiation circular dichroism spectroscopy of proteins and applications in structural and functional genomics. Chem Soc Rev 2006, 35:39-51.
    • (2006) Chem Soc Rev , vol.35 , pp. 39-51
    • Miles, A.J.1    Wallace, B.A.2
  • 12
    • 3242742115 scopus 로고    scopus 로고
    • The optimization of protein secondary structure determination with infrared and circular dichroism spectra
    • Oberg KA, Ruysschaert JM, Goormaghtigh E: The optimization of protein secondary structure determination with infrared and circular dichroism spectra. Eur J Biochem 2004, 271:2937-2948.
    • (2004) Eur J Biochem , vol.271 , pp. 2937-2948
    • Oberg, K.A.1    Ruysschaert, J.M.2    Goormaghtigh, E.3
  • 14
    • 0033042935 scopus 로고    scopus 로고
    • Estimation of the number of alpha-helical and beta-strand segments in proteins using circular dichroism spectroscopy
    • Sreerama N, Venyaminov SY, Woody RW: Estimation of the number of alpha-helical and beta-strand segments in proteins using circular dichroism spectroscopy. Protein Sci 1999, 8:370-380.
    • (1999) Protein Sci , vol.8 , pp. 370-380
    • Sreerama, N.1    Venyaminov, S.Y.2    Woody, R.W.3
  • 15
    • 0019871893 scopus 로고
    • Information content in the circular dichroism of proteins
    • Hennessey JP Jr, Johnson WC Jr: Information content in the circular dichroism of proteins, Biochemistry 1981, 20:1085-1094.
    • (1981) Biochemistry , vol.20 , pp. 1085-1094
    • Hennessey Jr, J.P.1    Johnson Jr., W.C.2
  • 16
    • 0027474991 scopus 로고
    • Left-handed polyproline II helices commonly occur in globular proteins
    • Adzhubei AA, Sternberg MJ: Left-handed polyproline II helices commonly occur in globular proteins. J Mol Biol 1993, 229:472-493.
    • (1993) J Mol Biol , vol.229 , pp. 472-493
    • Adzhubei, A.A.1    Sternberg, M.J.2
  • 17
    • 12844253803 scopus 로고    scopus 로고
    • Calibration and standardisation of synchrotron radiation circular dichroism and conventional circular dichroism spectrophotometers part 2: Factors affecting wavelength and ellipticity measurements
    • Miles AJ, Wien F, Lees JG, Wallace BA: Calibration and standardisation of synchrotron radiation circular dichroism and conventional circular dichroism spectrophotometers part 2: Factors affecting wavelength and ellipticity measurements. Spectroscopy 2005, 19:43-51 [http://iospress.metapress.cohn4rxefuecail55vlqlii45)/app/home/ contribution.asp?referrer=parent&backto=issue.3.13:journal.13.28: linkongpublicationresults,1:103186.1].
    • (2005) Spectroscopy , vol.19 , pp. 43-51
    • Miles, A.J.1    Wien, F.2    Lees, J.G.3    Wallace, B.A.4
  • 18
    • 13244255213 scopus 로고    scopus 로고
    • Spectral magnitude effects on the analyses of secondary structure from circular dichroism spectroscopic data
    • Miles AJ, Whitmore L, Wallace BA: Spectral magnitude effects on the analyses of secondary structure from circular dichroism spectroscopic data. Protein Sci 2005, 14:368-374.
    • (2005) Protein Sci , vol.14 , pp. 368-374
    • Miles, A.J.1    Whitmore, L.2    Wallace, B.A.3
  • 19
    • 23144465987 scopus 로고    scopus 로고
    • SCRATCH: A protein structure and structural feature prediction server
    • Cheng J, Randall A, Sweredoski M, Baldi P: SCRATCH: A protein structure and structural feature prediction server. Nucleic Acids Res 2005, 33:72-76.
    • (2005) Nucleic Acids Res , vol.33 , pp. 72-76
    • Cheng, J.1    Randall, A.2    Sweredoski, M.3    Baldi, P.4
  • 20
    • 0034044314 scopus 로고    scopus 로고
    • The PSIPRED protein structure prediction server
    • McGuffin LJ, Bryson K, Jones DT: The PSIPRED protein structure prediction server. Bioinformatics 2000, 16:404-405.
    • (2000) Bioinformatics , vol.16 , pp. 404-405
    • McGuffin, L.J.1    Bryson, K.2    Jones, D.T.3
  • 21
    • 0027932724 scopus 로고
    • Poly(Pro)II type structure in globular proteins - Identification and CD analysis
    • Sreerama N, Woody RW: Poly(Pro)II type structure in globular proteins - Identification and CD analysis. Biochemistry 1994, 33:10022-10025.
    • (1994) Biochemistry , vol.33 , pp. 10022-10025
    • Sreerama, N.1    Woody, R.W.2
  • 22
    • 0030039296 scopus 로고    scopus 로고
    • PROMOTIF - A program to identify and analyze structural motif in proteins
    • Hutchinson EG, Thornton JM: PROMOTIF - a program to identify and analyze structural motif in proteins. Protein Sci 1996, 5:212-20.
    • (1996) Protein Sci , vol.5 , pp. 212-220
    • Hutchinson, E.G.1    Thornton, J.M.2
  • 23
    • 0034672325 scopus 로고    scopus 로고
    • Estimation of protein secondary structure from circular dichroism spectra: Comparison of CONTIN, SELCON, and CDSSTR methods with an expanded reference set
    • Sreerama N, Woody RW: Estimation of protein secondary structure from circular dichroism spectra: comparison of CONTIN, SELCON, and CDSSTR methods with an expanded reference set. Anal Biochem 2000, 287:252-260.
    • (2000) Anal Biochem , vol.287 , pp. 252-260
    • Sreerama, N.1    Woody, R.W.2
  • 24
    • 0027447099 scopus 로고
    • A self-consistent method for the analysis of protein secondary structure from circular-dichroism
    • Sreerama N, Woody RW: A self-consistent method for the analysis of protein secondary structure from circular-dichroism. Anal Biochem 1993, 209:32-44.
    • (1993) Anal Biochem , vol.209 , pp. 32-44
    • Sreerama, N.1    Woody, R.W.2
  • 26
    • 33845251782 scopus 로고    scopus 로고
    • MATLAB MathWorks
    • MATLAB MathWorks. 2005.
    • (2005)
  • 27
    • 0026530383 scopus 로고
    • Quantitative analysis of protein far UV circular dichroism spectra by neural networks
    • Bohm G, Muhr R, Jaenicke R: Quantitative analysis of protein far UV circular dichroism spectra by neural networks. Protein Eng 1992, 5:191-195.
    • (1992) Protein Eng , vol.5 , pp. 191-195
    • Bohm, G.1    Muhr, R.2    Jaenicke, R.3
  • 28
    • 0003710380 scopus 로고    scopus 로고
    • LIBSVM: A library for support vector machines
    • Chang CC, Lin CJ: LIBSVM: a library for support vector machines. [http://www.csie.ntu.edu.tw/~cjlin/libsym].
    • Chang, C.C.1    Lin, C.J.2
  • 29
    • 0028593509 scopus 로고
    • Protein superfamilies and domain superfolds
    • Orengo CA, Jones DT, Thornton JM: Protein superfamilies and domain superfolds. Nature 1994, 372:631-634.
    • (1994) Nature , vol.372 , pp. 631-634
    • Orengo, C.A.1    Jones, D.T.2    Thornton, J.M.3
  • 30
    • 30344485698 scopus 로고    scopus 로고
    • The protein circular dichroism data bank (PCDDB): A bioinformatics and spectroscopic resource
    • Wallace BA, Whitmore L, Janes RW: The protein circular dichroism data bank (PCDDB): A bioinformatics and spectroscopic resource. Proteins: Struct Funct Bioinf 2006, 62:1-3 [http://pcddb.cryst.bbc.uk].
    • (2006) Proteins: Struct Funct Bioinf , vol.62 , pp. 1-3
    • Wallace, B.A.1    Whitmore, L.2    Janes, R.W.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.