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The publication data currently available has been vetted by Vanderbilt faculty, staff, administrators and trainees. The data itself is retrieved directly from NCBI's PubMed and is automatically updated on a weekly basis to ensure accuracy and completeness.

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Results: 21 to 30 of 112

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Simultaneous prediction of binding free energy and specificity for PDZ domain-peptide interactions.
Crivelli JJ, Lemmon G, Kaufmann KW, Meiler J
(2013) J Comput Aided Mol Des 27: 1051-65
MeSH Terms: Binding Sites, Disks Large Homolog 4 Protein, Entropy, Humans, Hydrogen Bonding, Intracellular Signaling Peptides and Proteins, Membrane Proteins, Models, Molecular, Models, Theoretical, Molecular Dynamics Simulation, PDZ Domains, Peptide Fragments, Protein Binding, Protein Conformation, Protein Interaction Domains and Motifs, Thermodynamics
Added January 24, 2015
1 Communities
1 Members
0 Resources
16 MeSH Terms
Incorporation of nucleoside probes opposite O⁶-methylguanine by Sulfolobus solfataricus DNA polymerase Dpo4: importance of hydrogen bonding.
Stornetta A, Angelov T, Guengerich FP, Sturla SJ
(2013) Chembiochem 14: 1634-9
MeSH Terms: DNA Polymerase beta, Fluorescent Dyes, Guanine, Hydrogen Bonding, Molecular Structure, Nucleosides, Sulfolobus solfataricus
Added March 7, 2014
0 Communities
1 Members
0 Resources
7 MeSH Terms
Recognition of O6-benzyl-2'-deoxyguanosine by a perimidinone-derived synthetic nucleoside: a DNA interstrand stacking interaction.
Kowal EA, Lad RR, Pallan PS, Dhummakupt E, Wawrzak Z, Egli M, Sturla SJ, Stone MP
(2013) Nucleic Acids Res 41: 7566-76
MeSH Terms: Base Pairing, Base Sequence, DNA, Deoxyguanosine, Glycosylation, Guanine, Hydrogen Bonding, Models, Molecular, Nucleic Acid Conformation, Nucleosides, Thermodynamics, Thymine
Added March 7, 2014
0 Communities
2 Members
0 Resources
12 MeSH Terms
Binding site dynamics and aromatic-carbohydrate interactions in processive and non-processive family 7 glycoside hydrolases.
Taylor CB, Payne CM, Himmel ME, Crowley MF, McCabe C, Beckham GT
(2013) J Phys Chem B 117: 4924-33
MeSH Terms: Amino Acid Substitution, Binding Sites, Catalytic Domain, Cellulase, Cellulose, Cellulose 1,4-beta-Cellobiosidase, Hydrogen Bonding, Molecular Dynamics Simulation, Mutagenesis, Protein Binding, Recombinant Proteins, Thermodynamics, Trichoderma
Added May 3, 2017
0 Communities
1 Members
0 Resources
13 MeSH Terms
2'-Fluoro RNA shows increased Watson-Crick H-bonding strength and stacking relative to RNA: evidence from NMR and thermodynamic data.
Patra A, Paolillo M, Charisse K, Manoharan M, Rozners E, Egli M
(2012) Angew Chem Int Ed Engl 51: 11863-6
MeSH Terms: Hydrogen Bonding, Models, Molecular, Nuclear Magnetic Resonance, Biomolecular, Nucleic Acid Conformation, RNA, Thermodynamics
Added March 7, 2014
0 Communities
1 Members
0 Resources
6 MeSH Terms
Structure of an E3:E2~Ub complex reveals an allosteric mechanism shared among RING/U-box ligases.
Pruneda JN, Littlefield PJ, Soss SE, Nordquist KA, Chazin WJ, Brzovic PS, Klevit RE
(2012) Mol Cell 47: 933-42
MeSH Terms: Crystallography, X-Ray, Hydrogen Bonding, Protein Binding, Protein Conformation, Protein Subunits, Signal Transduction, Ubiquitin, Ubiquitin-Conjugating Enzymes, Ubiquitin-Protein Ligases
Added March 12, 2014
0 Communities
1 Members
0 Resources
9 MeSH Terms
Crystal structure of 12-lipoxygenase catalytic-domain-inhibitor complex identifies a substrate-binding channel for catalysis.
Xu S, Mueser TC, Marnett LJ, Funk MO
(2012) Structure 20: 1490-7
MeSH Terms: Animals, Arachidonate 12-Lipoxygenase, Biocatalysis, Catalytic Domain, Coordination Complexes, Crystallography, X-Ray, Hydrogen Bonding, Hydrophobic and Hydrophilic Interactions, Iron, Lipoxygenase Inhibitors, Models, Molecular, Oxygen, Phenylpropionates, Protein Binding, Protein Structure, Secondary, Sus scrofa
Added June 1, 2014
0 Communities
2 Members
0 Resources
16 MeSH Terms
The steric hypothesis for DNA replication and fluorine hydrogen bonding revisited in light of structural data.
Egli M
(2012) Acc Chem Res 45: 1237-46
MeSH Terms: Base Pairing, Base Sequence, DNA, DNA Replication, DNA-Directed DNA Polymerase, Fluorine, Humans, Hydrogen Bonding
Added May 27, 2014
0 Communities
1 Members
0 Resources
8 MeSH Terms
Coordination modes of tyrosinate-ligated catalase-type heme enzymes: magnetic circular dichroism studies of Plexaura homomalla allene oxide synthase, Mycobacterium avium ssp. paratuberculosis protein-2744c, and bovine liver catalase in their ferric and ferrous states.
Bandara DM, Sono M, Bruce GS, Brash AR, Dawson JH
(2011) J Inorg Biochem 105: 1786-94
MeSH Terms: Amino Acid Substitution, Animals, Anthozoa, Bacterial Proteins, Carbon Monoxide, Catalase, Catalytic Domain, Cattle, Circular Dichroism, Coordination Complexes, Ferric Compounds, Ferrous Compounds, Humans, Hydrogen Bonding, Iron, Lipoxygenase, Liver, Mycobacterium avium subsp. paratuberculosis, Myoglobin, Oxidation-Reduction, Peroxidases
Added December 10, 2013
0 Communities
1 Members
0 Resources
21 MeSH Terms
Differences in folate-protein interactions result in differing inhibition of native rat liver and recombinant glycine N-methyltransferase by 5-methyltetrahydrofolate.
Luka Z, Pakhomova S, Loukachevitch LV, Newcomer ME, Wagner C
(2012) Biochim Biophys Acta 1824: 286-91
MeSH Terms: Animals, Catalytic Domain, Crystallography, X-Ray, Enzyme Inhibitors, Glycine N-Methyltransferase, Hydrogen Bonding, Liver, Models, Molecular, Protein Binding, Rats, Recombinant Proteins, Tetrahydrofolates, Valine
Added January 20, 2015
0 Communities
1 Members
0 Resources
13 MeSH Terms