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Volumn 297, Issue 1, 2000, Pages 251-265

Experimental and theoretical studies of the effects of deoxyribose substitutions on the stability of the UUCG tetraloop

Author keywords

Free energy perturbation; Ribose substitutions; RNA

Indexed keywords

DEOXYRIBOSE; HYDROXYL GROUP; NUCLEOTIDE; RNA;

EID: 0034677665     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1006/jmbi.2000.3547     Document Type: Article
Times cited : (36)

References (66)
  • 16
    • 0033032014 scopus 로고    scopus 로고
    • Intrinsic conformational properties of deoxyribonucleosides: Implicated role for cytosine in the equilibrium among the A, B, and Z forms of DNA
    • (1999) Biophys. J. , vol.76 , pp. 3206-3218
    • Foloppe, N.1    MacKerell A.D., Jr.2
  • 21
    • 0027956671 scopus 로고
    • Interactions of RNA hairpins with the human U1A N-terminal RNA binding domain
    • (1994) Biochemistry , vol.33 , pp. 10076-10088
    • Hall, K.B.1
  • 22
    • 0026423027 scopus 로고
    • Structural features that give rise to the unusual stability of RNA hairpins containing GNRA loops
    • (1991) Science , vol.253 , pp. 191-194
    • Heus, H.A.1    Pardi, A.2
  • 29
    • 0028334097 scopus 로고
    • Decomposition of the free energy of a system in terms of specific interactions. Implications for theoretical and experimental studies
    • (1994) J. Mol. Biol. , vol.240 , pp. 167-176
    • Mark, A.E.1    Van Gunsteren, W.F.2
  • 30
    • 0031577316 scopus 로고    scopus 로고
    • Theoretical studies of an exceptionally stable RNA tetraloop: Observation of convergence from an incorrect NMR structure to the correct one using unrestrained molecular dynamics
    • (1997) J. Mol. Biol. , vol.270 , pp. 436-450
    • Miller, J.L.1    Kollman, P.A.2
  • 31
    • 0030829239 scopus 로고    scopus 로고
    • Observation of an A-DNA to B-DNA transition in a non-helical nucleic acid hairpin molecule using molecular dynamics
    • (1997) Biophys. J. , vol.73 , pp. 2702-2710
    • Miller, J.L.1    Kollman, P.A.2
  • 37
    • 0029043773 scopus 로고
    • Determination of the differential effects of hydrogen bonding and water release on the binding of FK506 to native and Tyr82 → Phe82 FKB-12 proteins using free energy simulations
    • (1995) J. Mol. Biol. , vol.248 , pp. 696-717
    • Pearlman, D.A.1    Connelly, P.R.2
  • 39
    • 0000008625 scopus 로고    scopus 로고
    • Free energy calculations: Methods and applications
    • The Encyclopedia of Computational Chemistry (Schleyer, P. R., Allinger, N. L. and Gasteiger, T. C. J., eds), Wiley, New York
    • (1998) , pp. 1036-1061
    • Pearlman, D.A.1    Rao, B.G.2
  • 48
    • 0030032461 scopus 로고    scopus 로고
    • The denatured state (the other half of the folding equation) and its role in protein stability
    • (1996) FASEB J. , vol.10 , pp. 27-34
    • Shortle, D.1
  • 54
    • 85031610769 scopus 로고
    • SYBYL version 6.2. Molecular Modeling Software, TRIPOS Associates Inc
    • (1995)
  • 57
    • 0025061676 scopus 로고
    • Nucleic acid structures-tetraloops and RNA folding
    • (1990) Naure , vol.346 , pp. 613-614
    • Uhlenbeck, O.C.1
  • 61
    • 0033064123 scopus 로고    scopus 로고
    • Unrestrained stochastic dynamics simulations of the UUCG tetraloop using an implicit solvation model
    • (1999) Biophys J. , vol.76 , pp. 3192-3205
    • Williams, D.J.1    Hall, K.B.2
  • 63
    • 0000288764 scopus 로고
    • The nature of preferred hairpin structures in 16S-like rRNA variable regions
    • (1992) Nucl. Acids Res. , vol.87 , pp. 8467-8471
    • Wolters, J.1
  • 64
    • 0029806946 scopus 로고    scopus 로고
    • Perturbations of the denatured state ensemble: Modeling their effects on protein stability and folding kinetics
    • (1996) Protein Sci , vol.5 , pp. 2343-2352
    • Wrabl, J.O.1    Shortle, D.2
  • 65
    • 0029109915 scopus 로고
    • Molecular dynamics of RNA with the OPLS force field. Aqueous simulations of a hair-pin containing a tetranucleotide loop
    • (1995) J. Am. Chem. Soc. , vol.117 , pp. 2957-2969
    • Zichi, D.A.1
  • 66
    • 0028300845 scopus 로고
    • Site-directed mutagenesis of signal-recognition particle RNA. Identification of the nucleotides in helix 8 required for interaction with protein SRP19
    • (1994) Eur. J. Biochem. , vol.222 , pp. 885-890
    • Zwieb, C.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.