Franck Alain Pierre Vendeix

Works (10)

Updated: July 12th, 2023 21:18

2011 journal article

Human tRNA(UUU)(LYs3) Is Pre-Structured by Natural Modifications for Cognate and Wobble Codon Binding through Keto-Enol Tautomerism

JOURNAL OF MOLECULAR BIOLOGY, 416(4), 467–485.

By: F. Vendeix n, F. Murphy *, W. Cantara n, G. Leszczynska *, E. Gustilo n, B. Sproat, A. Malkiewicz*, P. Agris n

author keywords: modifications; wobble decoding; anticodon structure; tRNA(LYs3)
MeSH headings : Anticodon / chemistry; Base Pairing; Circular Dichroism; Codon / chemistry; Crystallography, X-Ray; Humans; Hydrogen Bonding; Models, Molecular; Nucleic Acid Conformation; Pseudouridine / chemistry; RNA, Transfer, Lys / chemistry; Thermodynamics; Thiouridine / analogs & derivatives; Thiouridine / chemistry
TL;DR: The results unambiguously demonstrate that modifications pre-structure the anticodon as a key prerequisite for efficient and accurate recognition of cognate and wobble codons. (via Semantic Scholar)
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3. Good Health and Well-being (Web of Science; OpenAlex)
Source: Web Of Science
Added: August 6, 2018

2010 journal article

Binding of aminoglycoside antibiotics to helix 69 of 23S rRNA

Nucleic Acids Research, 38(9), 3094–3105.

By: A. Scheunemann, W. Graham, F. Vendeix & P. Agris

Source: NC State University Libraries
Added: August 6, 2018

2009 journal article

Different Modes of Binding of Mono-, Di-, and Trihalogenated Phenols to the Hemoglobin Dehaloperoxidase from Amphitrite ornata

BIOCHEMISTRY, 48(10), 2164–2172.

By: M. Davis n, H. Gracz n, F. Vendeix n, V. Serrano n, A. Somasundaram n, S. Decatur n, S. Franzen n 

MeSH headings : Animals; Binding Sites / physiology; Catalysis; Catalytic Domain / physiology; Heme / chemistry; Hemoglobins / chemistry; Hemoglobins / genetics; Hemoglobins / metabolism; Hydrocarbons, Halogenated / chemistry; Hydrocarbons, Halogenated / metabolism; Molecular Conformation; Nuclear Magnetic Resonance, Biomolecular; Peroxidases / chemistry; Peroxidases / genetics; Peroxidases / metabolism; Phenols / chemistry; Phenols / metabolism; Polychaeta / enzymology; Polychaeta / genetics; Potassium Cyanide / chemistry; Protein Binding / physiology; Protein Conformation; Recombinant Proteins / chemistry; Recombinant Proteins / genetics; Recombinant Proteins / metabolism; Substrate Specificity
TL;DR: The most soluble trihalogenated phenol acts as a highly soluble structural analogue to the native substrate 2,4,6-tribromophenol, and to improve the understanding of substrate binding, the most soluble substrate analogues are compared. (via Semantic Scholar)
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Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2009 journal article

Free energy calculation of modified base-pair formation in explicit solvent: A predictive model

RNA, 15(12), 2278–2287.

By: F. Vendeix n, A. Munoz n & P. Agris n

author keywords: modified nucleosides; base pairs in water; wobble recognition; refined molecular dynamics simulation
MeSH headings : Base Pairing; Models, Genetic; Models, Molecular; Nuclear Magnetic Resonance, Biomolecular; RNA / chemistry; Thermodynamics
TL;DR: MDS is predictive of the effects of modifications, H(2)O molecule intervention in the formation of base-pair geometry, and energies that are important for native RNA structure and function. (via Semantic Scholar)
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7. Affordable and Clean Energy (OpenAlex)
Source: Web Of Science
Added: August 6, 2018

2009 journal article

The structure of the human tRNA(Lys3) anticodon bound to the HIV genome is stabilized by modified nucleosides and adjacent mismatch base pairs

NUCLEIC ACIDS RESEARCH, 37(10), 3342–3353.

By: Y. Bilbille n, F. Vendeix n, R. Guenther n, A. Malkiewicz n, X. Ariza  n, J. Vilarrasa  n, P. Agris n

MeSH headings : Anticodon / chemistry; Base Pair Mismatch; Base Sequence; Carbohydrates / chemistry; Genome, Viral; HIV-1 / genetics; Humans; Models, Molecular; Molecular Sequence Data; Nuclear Magnetic Resonance, Biomolecular; Protons; Pseudouridine / chemistry; RNA, Transfer, Lys / chemistry; RNA, Viral / chemistry; Thermodynamics; Thiouridine / analogs & derivatives; Thiouridine / chemistry
TL;DR: The thermal stabilities of variously modified tRNA anticodon region sequences bound to the Loop I of viral sub(sero)types G and B were analyzed and the structure of one duplex containing two modified nucleosides was determined using NMR spectroscopy and restrained molecular dynamics. (via Semantic Scholar)
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10. Reduced Inequalities (OpenAlex)
Source: Web Of Science
Added: August 6, 2018

2008 journal article

Anticodon domain modifications contribute order to tRNA for ribosome-mediated codon binding

BIOCHEMISTRY, 47(23), 6117–6129.

By: F. Vendeix n, A. Dziergowska  n, E. Gustilo n, W. Graham n, B. Sproat n, A. Malkiewicz n, P. Agris n

MeSH headings : Anticodon / chemistry; Base Sequence; Binding Sites; Codon / chemistry; Codon / metabolism; Dinucleoside Phosphates / chemistry; Escherichia coli / genetics; Magnetic Resonance Spectroscopy; Nucleic Acid Conformation; Oligoribonucleotides / chemistry; RNA, Bacterial / chemistry; RNA, Bacterial / genetics; RNA, Transfer / genetics; Ribosomes / metabolism
TL;DR: Results clearly demonstrate that the xo (5)U 34-type modifications order the anticodon loop prior to A-site codon binding for an expanded codon reading, possibly reducing an entropic energy barrier to codonbinding. (via Semantic Scholar)
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7. Affordable and Clean Energy (OpenAlex)
Source: Web Of Science
Added: August 6, 2018

2008 journal article

Synthesis and investigation of the 5-formylcytidine modified, anticodon stem and loop of the human mitochondrial tRNA(Met)

NUCLEIC ACIDS RESEARCH, 36(20), 6548–6557.

By: H. Lusic n, E. Gustilo n, F. Vendeix n, R. Kaiser n, M. Delaney n, W. Graham n, V. Moye n, W. Cantara n, P. Agris n, A. Deiters n

MeSH headings : Anticodon / chemistry; Base Sequence; Codon / metabolism; Cytidine / analogs & derivatives; Cytidine / chemistry; Humans; Molecular Sequence Data; Nucleic Acid Conformation; Protein Biosynthesis; RNA / chemistry; RNA, Mitochondrial; RNA, Transfer, Met / chemical synthesis; RNA, Transfer, Met / chemistry; RNA, Transfer, Met / metabolism; Thermodynamics
TL;DR: The first synthesis and analyses of the tRNA's anticodon stem and loop domain containing the 5-formylcytidine modification are reported, contributing to the tRNAs anticodon domain structure, thermodynamic properties and its ability to bind codons AUA and AUG in translational initiation and elongation. (via Semantic Scholar)
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Source: Web Of Science
Added: August 6, 2018

2007 journal article

Mechanism for expanding the decoding capacity of transfer RNAs by modification of uridines

NATURE STRUCTURAL & MOLECULAR BIOLOGY, 14(6), 498–502.

By: A. Weixlbaumer *, F. Murphy *, A. Dziergowska *, A. Malkiewicz*, F. Vendeix n, P. Agris n, V. Ramakrishnan *

MeSH headings : Amino Acid Sequence; Anticodon / genetics; Base Pairing; Base Sequence; Codon / genetics; Crystallography; Models, Molecular; Molecular Sequence Data; Molecular Structure; RNA, Transfer, Val / genetics; RNA, Transfer, Val / physiology; Uridine / chemistry
TL;DR: Structures of an anticodon stem-loop of tRNAVal containing the modified uridine with all four valine codons in the decoding site of the 30S ribosomal subunit are determined and suggest how a modification in the uridine at the wobble position can expand the decoding capability of a tRNA. (via Semantic Scholar)
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Source: Web Of Science
Added: August 6, 2018

2007 journal article

NMR studies of the inclusion complex of cloprostenol sodium salt with beta-cyclodextrin in aqueous solution

PHARMACEUTICAL RESEARCH, 25(5), 1142–1149.

By: H. Whang n, F. Vendeix n, H. Gracz n, J. Gadsby n  & A. Tonelli n

author keywords: cloprostenol sodium salt; cyclodextrins; inclusion complexes; molecular modeling; nuclear magnetic resonance
MeSH headings : Chemical Phenomena; Chemistry, Physical; Cloprostenol / chemistry; Magnetic Resonance Spectroscopy; Models, Molecular; Solutions; beta-Cyclodextrins / chemistry
TL;DR: This is the first study of the inclusion complex of cloprostenol with β-cyclodextrin (β-CD) in aqueous solution using NMR and 3D molecular dynamics simulations and it is found that β-CD forms a 1:1 inclusion complex with clop Frostenol. (via Semantic Scholar)
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Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2007 review

tRNA's wobble decoding of the genome: 40 years of modification

[Review of ]. Journal of Molecular Biology, 366(1), 1–13.

By: P. Agris, F. Vendeix & W. Graham

Source: NC State University Libraries
Added: August 6, 2018

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