Works (22)

Updated: July 5th, 2023 16:03

2012 journal article

Structurally Conserved Nop56/58 N-terminal Domain Facilitates Archaeal Box C/D Ribonucleoprotein-guided Methyltransferase Activity

JOURNAL OF BIOLOGICAL CHEMISTRY, 287(23), 19418–19428.

By: K. Gagnon n, S. Biswas n, X. Zhang n, B. Brown  n, P. Wollenzien n, C. Mattos n, E. Maxwell n

co-author countries: United States of America πŸ‡ΊπŸ‡Έ
MeSH headings : Archaeal Proteins / chemistry; Archaeal Proteins / genetics; Archaeal Proteins / metabolism; Chromosomal Proteins, Non-Histone / chemistry; Chromosomal Proteins, Non-Histone / genetics; Chromosomal Proteins, Non-Histone / metabolism; Methanococcales / chemistry; Methanococcales / genetics; Methanococcales / metabolism; Methyltransferases / chemistry; Methyltransferases / genetics; Methyltransferases / metabolism; Protein Binding; Protein Structure, Tertiary; Ribonucleoproteins / chemistry; Ribonucleoproteins / genetics; Ribonucleoproteins / metabolism
Source: Web Of Science
Added: August 6, 2018

2009 journal article

Hydrogen bonding and packing density are factors most strongly connected to limiting sites of high flexibility in the 16S rRNA in the 30S ribosome

BMC Structural Biology, 9.

By: W. Huggins, S. Ghosh  & P. Wollenzien

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

2007 journal article

Conformational energy and structure in canonical and noncanonical forms of tRNA determined by temperature analysis of the rate of s(4)U8-C13 photocrosslinking

RNA, 13(11), 2000–2011.

By: W. Huggins, T. Shapkina* & P. Wollenzien*

author keywords: RNA tertiary structure; photocrosslinking rates; activation energy; conformational energy; T-1 excited state lifetimes
MeSH headings : Base Composition; Base Sequence; Buffers; Cytosine / chemistry; Molecular Sequence Data; Nucleic Acid Conformation; RNA, Bacterial; RNA, Transfer / chemistry; RNA, Transfer, Met / chemistry; RNA, Transfer, Phe / chemistry; RNA, Transfer, Val / chemistry; Temperature; Thermodynamics; Uracil / chemistry
Source: Web Of Science
Added: August 6, 2018

2005 journal article

Internucleotide movements during formation of 16 S rRNA-rRNA photocrosslinks and their connection to the 30 S subunit conformational dynamics

JOURNAL OF MOLECULAR BIOLOGY, 354(2), 358–374.

By: W. Huggins  n, S. Ghosh n , K. Nanda n & P. Wollenzien n

co-author countries: United States of America πŸ‡ΊπŸ‡Έ

Contributors: W. Huggins  n, S. Ghosh n , K. Nanda n & P. Wollenzien n

author keywords: 16 S rRNA tertiary structure; photocrosslinking; conformational flexibility
MeSH headings : Base Pairing; Base Sequence; Binding Sites; Cross-Linking Reagents; Escherichia coli / chemistry; Escherichia coli / genetics; Escherichia coli / radiation effects; Models, Molecular; Molecular Sequence Data; Nucleic Acid Conformation / radiation effects; Nucleotides / chemistry; Nucleotides / metabolism; Nucleotides / radiation effects; Photochemistry; Protein Conformation / radiation effects; Protein Subunits; RNA, Bacterial / chemistry; RNA, Bacterial / genetics; RNA, Bacterial / radiation effects; RNA, Ribosomal, 16S / chemistry; RNA, Ribosomal, 16S / metabolism; RNA, Ribosomal, 16S / radiation effects; RNA, Transfer / chemistry; RNA, Transfer / genetics; RNA, Transfer / metabolism; Ribosomal Proteins / chemistry; Ribosomal Proteins / genetics; Ribosomal Proteins / metabolism; Ribosomes / chemistry; Ribosomes / metabolism; Ribosomes / radiation effects; Ultraviolet Rays
Sources: Web Of Science, ORCID
Added: August 6, 2018

2004 journal article

A 16S rRNA-tRNA product containing a nucleotide phototrimer and specific for tRNA in the P/E hybrid state in the Escherichia coli ribosome

NUCLEIC ACIDS RESEARCH, 32(22), 6548–6556.

By: W. Huggins  n & P. Wollenzien n

co-author countries: United States of America πŸ‡ΊπŸ‡Έ
MeSH headings : Base Sequence; Binding Sites; Escherichia coli / genetics; Kinetics; Light; Molecular Sequence Data; Nucleotides / analysis; Puromycin / pharmacology; RNA, Bacterial / chemistry; RNA, Ribosomal, 16S / chemistry; RNA, Ribosomal, 16S / metabolism; RNA, Transfer, Amino Acyl / chemistry; RNA, Transfer, Amino Acyl / metabolism; RNA, Transfer, Val / chemistry; RNA, Transfer, Val / metabolism; Ribosomes / chemistry; Ribosomes / metabolism; Ribosomes / radiation effects; Transcription, Genetic
Source: Web Of Science
Added: August 6, 2018

2004 journal article

Efficiency and pattern of UV pulse laser-induced RNA-RNA cross-linking in the ribosome

NUCLEIC ACIDS RESEARCH, 32(4), 1518–1526.

By: T. Shapkina n, S. Lappi*, S. Franzen*  & P. Wollenzien*

co-author countries: United States of America πŸ‡ΊπŸ‡Έ
MeSH headings : Base Sequence; Escherichia coli / genetics; Lasers; Molecular Sequence Data; Photons; Purine Nucleosides / radiation effects; RNA, Ribosomal, 16S / chemistry; RNA, Ribosomal, 16S / radiation effects; Ribosomes / radiation effects; Ultraviolet Rays
Sources: Web Of Science, ORCID
Added: August 6, 2018

2004 journal article

Pattern of 4-thiouridine-induced cross-linking in 16S ribosomal RNA in the Escherichia coli 30S subunit

BIOCHEMISTRY, 43(28), 8923–8934.

By: K. Nanda n & P. Wollenzien n

co-author countries: United States of America πŸ‡ΊπŸ‡Έ
MeSH headings : Base Sequence; Escherichia coli / genetics; Molecular Sequence Data; Molecular Structure; Photochemistry; RNA, Ribosomal, 16S / chemistry; Ribosomes / chemistry; Sequence Analysis, RNA; Thiouridine / chemistry; Ultraviolet Rays
Source: Web Of Science
Added: August 6, 2018

2003 journal article

Action spectra for UV-light induced RNA-RNA crosslinking in 16S ribosomal RNA in the ribosome

PHOTOCHEMICAL & PHOTOBIOLOGICAL SCIENCES, 2(6), 688–693.

By: O. Zhirnov n & P. Wollenzien n

co-author countries: United States of America πŸ‡ΊπŸ‡Έ
MeSH headings : Base Sequence; DNA / chemistry; DNA / radiation effects; Electrophoresis, Polyacrylamide Gel; Escherichia coli / chemistry; Molecular Sequence Data; Nucleic Acid Conformation; Photochemistry; RNA, Bacterial / chemistry; RNA, Bacterial / metabolism; RNA, Bacterial / radiation effects; RNA, Ribosomal, 16S / chemistry; RNA, Ribosomal, 16S / metabolism; RNA, Ribosomal, 16S / radiation effects; Ribosomes / radiation effects; Spectrophotometry, Ultraviolet; Ultraviolet Rays
Source: Web Of Science
Added: August 6, 2018

2003 journal article

Conformational change in the 16S rRNA in the Escherichia coli 70S ribosome induced by P/P- and P/E-site tRNA(Phe) binding

BIOCHEMISTRY, 42(49), 14386–14396.

By: J. Noah n, T. Shapkina n, K. Nanda n, W. Huggins  n & P. Wollenzien n

co-author countries: United States of America πŸ‡ΊπŸ‡Έ
MeSH headings : Acetylation / radiation effects; Binding Sites / radiation effects; Cytosine / chemistry; Cytosine / radiation effects; Escherichia coli / chemistry; Escherichia coli / genetics; Escherichia coli / radiation effects; Nucleic Acid Conformation / radiation effects; Peptide Chain Elongation, Translational / genetics; Peptide Chain Elongation, Translational / radiation effects; Photochemistry; Poly U / chemistry; Poly U / genetics; RNA, Bacterial / chemistry; RNA, Bacterial / genetics; RNA, Bacterial / radiation effects; RNA, Messenger / chemistry; RNA, Messenger / genetics; RNA, Messenger / radiation effects; RNA, Ribosomal, 16S / chemistry; RNA, Ribosomal, 16S / genetics; RNA, Ribosomal, 16S / radiation effects; RNA, Transfer, Phe / chemistry; RNA, Transfer, Phe / genetics; RNA, Transfer, Phe / radiation effects; Ribosomes / chemistry; Ribosomes / genetics; Ribosomes / radiation effects; Transcription, Genetic / radiation effects; Ultraviolet Rays
Source: Web Of Science
Added: August 6, 2018

2001 journal article

Arrangement of the central pseudoknot region of 16S rRNA in the 30S ribosomal subunit determined by site-directed 4-thiouridine crosslinking

RNA, 7(1), 71–84.

By: D. Juzumiene n & P. Wollenzien n

co-author countries: United States of America πŸ‡ΊπŸ‡Έ
author keywords: 16S rRNA three-dimensional structure; intramolecular RNA-RNA crosslinks; mRNA decoding region
MeSH headings : Base Sequence; Cross-Linking Reagents; DNA Ligases / metabolism; DNA, Single-Stranded / chemistry; Escherichia coli / genetics; Escherichia coli / virology; Models, Molecular; Molecular Sequence Data; Nucleic Acid Conformation; Oligoribonucleotides / chemical synthesis; Oligoribonucleotides / chemistry; RNA, Ribosomal, 16S / chemistry; RNA, Ribosomal, 16S / drug effects; Reverse Transcriptase Polymerase Chain Reaction; Ribosomes / chemistry; Ribosomes / drug effects; Ribosomes / ultrastructure; Thiouridine / pharmacology; Transcription, Genetic
Source: Web Of Science
Added: August 6, 2018

2001 journal article

Construction and analysis of base-paired regions of the 16S rRNA in the 30S ribosomal subunit determined by constraint satisfaction molecular modelling

JOURNAL OF MOLECULAR GRAPHICS & MODELLING, 19(6), 495–513.

By: M. Dolan  n, P. Babin n & P. Wollenzien n

co-author countries: United States of America πŸ‡ΊπŸ‡Έ
author keywords: molecular modelling; RNA structure; ribosomal RNA; comparative sequence analysis
MeSH headings : Base Pairing; Base Sequence; Computer Simulation; Escherichia coli / genetics; Models, Molecular; Molecular Sequence Data; Nucleic Acid Conformation; RNA; RNA, Bacterial / chemistry; RNA, Ribosomal, 16S / chemistry; Ribosomes
Source: Web Of Science
Added: August 6, 2018

2001 journal article

Short-range RNA-RNA crosslinking methods to determine rRNA structure and interactions

METHODS, 25(3), 333–343.

By: D. Juzumiene n, T. Shapkina n, S. Kirillov n & P. Wollenzien n

co-author countries: United States of America πŸ‡ΊπŸ‡Έ
MeSH headings : Cross-Linking Reagents / pharmacology; DNA Ligases / chemistry; DNA Ligases / isolation & purification; DNA, Complementary / chemistry; Electrophoresis, Polyacrylamide Gel; Models, Molecular; Nucleic Acid Conformation; RNA / chemistry; RNA / ultrastructure; RNA, Messenger / chemistry; RNA, Ribosomal / chemistry; RNA, Ribosomal, 16S / chemistry; RNA, Transfer / chemistry; Ultraviolet Rays
Source: Web Of Science
Added: August 6, 2018

2000 journal article

Initiation factor 3-induced structural changes in the 30 S ribosomal subunit and in complexes containing tRNA(f)(Met) and mRNA

JOURNAL OF MOLECULAR BIOLOGY, 299(3), 615–628.

By: T. Shapkina n, M. Dolan  n, P. Babin n & P. Wollenzien n

co-author countries: United States of America πŸ‡ΊπŸ‡Έ
author keywords: initiation factor 3; UV-induced crosslinking; 16 S rRNA coformational change; molecular model; 16 S rRNA-tRNA interaction
MeSH headings : Alkalies / metabolism; Anticodon / genetics; Bacterial Proteins / chemistry; Bacterial Proteins / metabolism; Base Sequence; Binding Sites / radiation effects; Escherichia coli / chemistry; Escherichia coli / genetics; Hydrolysis; Models, Molecular; Nucleic Acid Conformation; Peptide Initiation Factors / chemistry; Peptide Initiation Factors / metabolism; Prokaryotic Initiation Factor-3; Protein Binding / radiation effects; Protein Structure, Tertiary; RNA, Bacterial / chemistry; RNA, Bacterial / genetics; RNA, Bacterial / metabolism; RNA, Messenger / genetics; RNA, Messenger / metabolism; RNA, Ribosomal, 16S / chemistry; RNA, Ribosomal, 16S / genetics; RNA, Ribosomal, 16S / metabolism; RNA, Transfer, Met / genetics; RNA, Transfer, Met / metabolism; RNA-Binding Proteins / chemistry; RNA-Binding Proteins / metabolism; Ribosomal Proteins / chemistry; Ribosomal Proteins / metabolism; Ribosomes / chemistry; Ribosomes / genetics; Ribosomes / metabolism; Transcription, Genetic / genetics; Ultraviolet Rays
Source: Web Of Science
Added: August 6, 2018

2000 journal article

Organization of the 16S rRNA around its 5 ' terminus determined by photochemical crosslinking in the 30S ribosomal subunit

RNA, 6(1), 26–40.

By: D. Juzumiene n & P. Wollenzien n

co-author countries: United States of America πŸ‡ΊπŸ‡Έ
author keywords: 16S rRNA three-dimensional structure; intramolecular RNA-RNA cross-links; reverse transcription arrest assay
MeSH headings : Azides; Base Sequence; Cross-Linking Reagents; Molecular Sequence Data; Nucleic Acid Conformation; RNA, Ribosomal, 16S / chemistry; RNA, Transfer / chemistry; RNA, Transfer / radiation effects; Ultraviolet Rays
Source: Web Of Science
Added: August 6, 2018

2000 chapter

Structure determination by directed photo-cross-linking in large RNA molecules with site-specific psoralen

In R.W. Skaggs & J. Schilfgaarde (Eds.), RNA-ligland interactions: Part B (Vol. 318, pp. 104–118).

By: D. Mundus & P. Wollenzien*

Ed(s): . R.W. Skaggs & J. Schilfgaarde

MeSH headings : Azides / pharmacology; Chromatography, High Pressure Liquid; Cross-Linking Reagents / pharmacology; Cystamine / chemistry; DNA / chemistry; DNA / metabolism; Electrophoresis, Polyacrylamide Gel; Ficusin / pharmacology; Furocoumarins; Genetic Techniques; Models, Chemical; Phosphorylation; Photoaffinity Labels / pharmacology; Photosensitizing Agents / pharmacology; RNA / chemistry; RNA / drug effects; RNA / metabolism; RNA / radiation effects; RNA, Ribosomal, 16S / metabolism; Time Factors; Transcription, Genetic; Ultraviolet Rays
Source: NC State University Libraries
Added: August 6, 2018

2000 journal article

UV-induced crosslinks in the 16S rRNAs of Escherichia coli, Bacillus subtilis and Thermus aquaticus and their implications for ribosome structure and photochemistry

NUCLEIC ACIDS RESEARCH, 28(19), 3785–3792.

By: J. Noah n, T. Shapkina n & P. Wollenzien n

co-author countries: United States of America πŸ‡ΊπŸ‡Έ
MeSH headings : Bacillus subtilis / cytology; Bacillus subtilis / genetics; Bacillus subtilis / radiation effects; Base Composition; Base Sequence; Binding Sites; Conserved Sequence / genetics; Conserved Sequence / radiation effects; Escherichia coli / cytology; Escherichia coli / genetics; Escherichia coli / radiation effects; Hot Temperature; Lasers; Molecular Sequence Data; Nucleic Acid Conformation / radiation effects; Nucleotides / chemistry; Nucleotides / genetics; Nucleotides / metabolism; Nucleotides / radiation effects; Photochemistry; RNA, Bacterial / chemistry; RNA, Bacterial / genetics; RNA, Bacterial / metabolism; RNA, Bacterial / radiation effects; RNA, Ribosomal, 16S / chemistry; RNA, Ribosomal, 16S / genetics; RNA, Ribosomal, 16S / metabolism; RNA, Ribosomal, 16S / radiation effects; Ribosomes / chemistry; Ribosomes / genetics; Ribosomes / radiation effects; Thermus / cytology; Thermus / genetics; Thermus / radiation effects; Transcription, Genetic; Ultraviolet Rays
Source: Web Of Science
Added: August 6, 2018

1999 journal article

Effects of tetracycline and spectinomycin on the tertiary structure of ribosomal RNA in the Escherichia coli 30 S ribosomal subunit

JOURNAL OF BIOLOGICAL CHEMISTRY, 274(23), 16576–16581.

By: J. Noah n, M. Dolan  n, P. Babin n & P. Wollenzien n

co-author countries: United States of America πŸ‡ΊπŸ‡Έ
MeSH headings : Anti-Bacterial Agents / pharmacology; Base Sequence; Electrophoresis, Polyacrylamide Gel; Escherichia coli / drug effects; Escherichia coli / genetics; Escherichia coli / radiation effects; Models, Molecular; Molecular Sequence Data; Nucleic Acid Conformation; RNA, Bacterial / drug effects; RNA, Bacterial / metabolism; RNA, Bacterial / radiation effects; RNA, Ribosomal, 16S / drug effects; RNA, Ribosomal, 16S / radiation effects; RNA, Ribosomal, 16S / ultrastructure; Ribosomes / radiation effects; Ribosomes / ultrastructure; Spectinomycin / pharmacology; Tetracycline / pharmacology; Ultraviolet Rays
Source: Web Of Science
Added: August 6, 2018

1999 journal article

Identity and geometry of a base triple in 16S rRNA determined by comparative sequence analysis and molecular modeling

RNA, 5(11), 1430–1439.

By: P. Babin n, M. Dolan  n, P. Wollenzien n & R. Gutell *

co-author countries: United States of America πŸ‡ΊπŸ‡Έ
author keywords: 16S rRNA; base triple; comparative sequence analysis; molecular modeling
MeSH headings : Base Pairing; Base Sequence; Escherichia coli / genetics; Hydrogen Bonding; Models, Molecular; Nucleic Acid Conformation; RNA, Bacterial / chemistry; RNA, Ribosomal, 16S / chemistry; Ribosomes / genetics; Sequence Homology, Nucleic Acid
Source: Web Of Science
Added: August 6, 2018

1998 journal article

Dependence of the 16S rRNA decoding region structure on Mg2+, subunit association, and temperature

BIOCHEMISTRY, 37(44), 15442–15448.

By: J. Noah n & P. Wollenzien n

co-author countries: United States of America πŸ‡ΊπŸ‡Έ
MeSH headings : Base Sequence; Escherichia coli; Genetic Code; Magnesium / chemistry; Magnesium / metabolism; Molecular Sequence Data; RNA, Ribosomal, 16S / chemistry; RNA, Ribosomal, 16S / metabolism; Ribosomal Proteins / chemistry; Ribosomal Proteins / metabolism; Ribosomes / chemistry; Ribosomes / metabolism; Structure-Activity Relationship; Temperature; Ultraviolet Rays
Source: Web Of Science
Added: August 6, 2018

1998 journal article

Neighborhood of 16S rRNA nucleotides U788/U789 in the 30S ribosomal subunit determined by site-directed crosslinking

RNA, 4(11), 1373–1385.

By: D. Mundus n & P. Wollenzien n

co-author countries: United States of America πŸ‡ΊπŸ‡Έ
author keywords: 16S rRNA three-dimensional structure; chemical probing; intramolecular RNA-RNA crosslinks; molecular modeling; reverse transcription arrest assay
MeSH headings : Aldehydes / metabolism; Base Sequence; Binding Sites; Butanones; Catalytic Domain; Chromatography, High Pressure Liquid; Codon / metabolism; Cross-Linking Reagents / metabolism; Electrophoresis, Polyacrylamide Gel; Escherichia coli / metabolism; Ficusin / metabolism; Guanine / analysis; Molecular Sequence Data; Nucleic Acid Conformation; Photosensitizing Agents / metabolism; RNA, Ribosomal, 16S / chemistry; RNA, Ribosomal, 16S / isolation & purification; RNA, Ribosomal, 16S / metabolism; RNA, Transfer, Amino Acid-Specific / metabolism; Ribosomes / chemistry; Ribosomes / metabolism; Transcription, Genetic; Uridine / metabolism
Source: Web Of Science
Added: August 6, 2018

1997 journal article

Exact determination of UV-induced crosslinks in 16S ribosomal RNA in 30s ribosomal subunits

RNA, 3(6), 602–612.

By: C. Wilms, J. Noah, D. Zhong & P. Wollenzien

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

1997 journal article

Exact determination of UV-induced crosslinks in 16S ribosomal RNA in 30s ribosomal subunits: Erratum

RNA, 3(8), 945.

By: C. Wilms, J. Noah, D. Zhong & P. Wollenzien

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