Works (69)
Updated: August 2nd, 2023 21:16
2020 journal article
The Solution Structures and Interaction of SinR and SinI: Elucidating the Mechanism of Action of the Master Regulator Switch for Biofilm Formation in Bacillus subtilis
JOURNAL OF MOLECULAR BIOLOGY, 432(2), 343–357.
author keywords: Biofilms; Bacillus subtilis; Transcriptional regulation; NMR solution structure
MeSH headings : Amino Acid Sequence / genetics; Bacillus subtilis / genetics; Bacillus subtilis / ultrastructure; Bacterial Proteins / chemistry; Bacterial Proteins / genetics; Bacterial Proteins / ultrastructure; Biofilms / growth & development; DNA-Binding Proteins / chemistry; DNA-Binding Proteins / genetics; DNA-Binding Proteins / ultrastructure; Gene Expression Regulation, Bacterial / genetics; Molecular Docking Simulation; Mutation / genetics; Protein Binding / genetics; Protein Conformation
TL;DR:
This work presents the first full-length structural model of tetrameric SinR using a hybrid approach combining high-resolution solution NMR, chemical crosslinking, mass spectrometry, and molecular docking, and provides an evidence-based mechanism that confirms how disruption of the SinR tetramer by SinI regulates gene expression.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: February 27, 2020
2018 journal article
Re-sensitizing Multidrug Resistant Bacteria to Antibiotics by Targeting Bacterial Response Regulators: Characterization and Comparison of Interactions between 2-Aminoimidazoles and the Response Regulators BfmR from Acinetobacter baumannii and QseB from Francisella spp.
FRONTIERS IN MOLECULAR BIOSCIENCES, 5.
author keywords: biofilms; antibiotic resistance; two-component systems; response regulators; Acinetobacter baumannii; Francisella
TL;DR:
This work investigates the response regulator/2-AI interaction and looks at a wider library of 2-AI compounds, and establishes that Francisella tularensis/novicida, encoding for only three known response regulators, can be a model system to study the interaction between 2-AIs and response regulators.
(via Semantic Scholar)
www.frontiersin.org (publisher PDF)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: January 28, 2019
2018 journal article
The Structure of the Biofilm-controlling Response Regulator BfmR from Acinetobacter baumannii Reveals Details of Its DNA-binding Mechanism
Journal of Molecular Biology, 430(6), 806–821.
MeSH headings : Acinetobacter baumannii / drug effects; Acinetobacter baumannii / genetics; Acinetobacter baumannii / metabolism; Anti-Bacterial Agents / pharmacology; Bacterial Proteins / chemistry; Bacterial Proteins / genetics; Bacterial Proteins / metabolism; Base Sequence; Biofilms / drug effects; Biofilms / growth & development; Cloning, Molecular; Crystallography, X-Ray; DNA-Binding Proteins / genetics; DNA-Binding Proteins / metabolism; Gene Expression Regulation, Bacterial; Models, Molecular; Phosphorylation; Promoter Regions, Genetic; Protein Conformation
TL;DR:
The structure of A. baumannii BfmR is presented using a hybrid approach combining X-ray crystallography, nuclear magnetic resonance spectroscopy, chemical crosslinking mass spectrometry, and molecular modeling and it is observed that when phosphorylated, BFMR binds this promoter sequence with a lower affinity than when not phosphorylation.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science; OpenAlex)
Sources: Crossref, Web Of Science
Added: August 6, 2018
2017 journal article
Evaluation of a 2-aminoimidazole variant as adjuvant treatment for dermal bacterial infections
Drug Design Development and Therapy, 11, 153–162.
Source: NC State University Libraries
Added: August 6, 2018
2016 journal article
Potentiation of Francisella resistance to conventional antibiotics through small molecule adjuvants
MEDCHEMCOMM, 7(1), 128–131.
TL;DR:
A screen of 20 compounds identified small molecule adjuvants capable of potentiating anitbiotic activty against Francisella philomiragia and led to the discovery of a potentially new class of small molecule aduvants containg an indole core.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2015 journal article
Augmenting anti-cancer natural products with a small molecule adjuvant
Marine Drugs, 13(1), 65–75.
Source: NC State University Libraries
Added: August 6, 2018
2015 journal article
Membrane-Permeabilizing Activity of Reverse-Amide 2-Aminoimidazole Antibiofilm Agents Against Acinetobacter baumannii
CURRENT DRUG DELIVERY, 12(2), 223–230.
author keywords: 2-aminoimidazole; Acinetobacter baumannii; biofilm; membrane permeabilization; reverse amide; SEM
MeSH headings : Acinetobacter baumannii / drug effects; Amides / chemistry; Anti-Bacterial Agents / chemistry; Anti-Bacterial Agents / pharmacology; Biofilms / drug effects; Cell Membrane Permeability / drug effects; Cells, Cultured; Cross Infection; Imidazoles / chemistry; Imidazoles / pharmacology; Microbial Sensitivity Tests
TL;DR:
A model is proposed that describes how the structure of RA-2AI allows it to insert itself into and disrupt the fluidity of the membrane, creating an opportunity for increased molecular permeability.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2015 article
Teaching old drugs new tricks: Addressing resistance in Francisella
Feldmann, E. A., & Cavanagh, J. (2015, July 4). VIRULENCE, Vol. 6, pp. 414–416.
MeSH headings : Animals; Biofilms / drug effects; Female; Francisella / drug effects; Maprotiline / chemistry; Maprotiline / pharmacology; Protein Kinases / metabolism; Tularemia / drug therapy
TL;DR:
A proposed model suggests that Francisella sensor kinases may not necessarily discriminate for a single response regulator partner, but rather phosphorylate their targets more “promiscuously”.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2014 journal article
A DNA Mimic: The Structure and Mechanism of Action for the Anti-Repressor Protein AbbA
JOURNAL OF MOLECULAR BIOLOGY, 426(9), 1911–1924.
author keywords: transition state regulator; AbbA; DNA mimic; molecular docking; NMR
MeSH headings : Bacillus subtilis / chemistry; Bacillus subtilis / metabolism; Bacterial Proteins / chemistry; Bacterial Proteins / metabolism; Magnetic Resonance Spectroscopy; Models, Molecular; Molecular Docking Simulation; Protein Conformation; Protein Multimerization
TL;DR:
Interestingly, it is shown that AbbA has structural and surface characteristics that closely mimic the DNA phosphate backbone, enabling it to readily carry out its physiological function.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
15. Life on Land
(OpenAlex)
Source: Web Of Science
Added: August 6, 2018
2014 journal article
Chemical shift assignments and secondary structure prediction of the C-terminal domain of the response regulator BfmR from Acinetobacter baumannii
BIOMOLECULAR NMR ASSIGNMENTS, 8(1), 67–70.
author keywords: NMR; BfmR; Acinetobacter baumannii; Assignment
MeSH headings : Acinetobacter baumannii / metabolism; Bacterial Proteins / chemistry; Nuclear Magnetic Resonance, Biomolecular; Protein Structure, Secondary; Protein Structure, Tertiary
TL;DR:
Backbone and sidechain resonance assignments and secondary structure prediction for the C-terminal domain of BfmR (residues 130–238) from A. baumannii are reported.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2014 journal article
Chemical shift assignments and secondary structure prediction of the master biofilm regulator, SinR, from Bacillus subtilis
BIOMOLECULAR NMR ASSIGNMENTS, 8(1), 155–158.
author keywords: NMR; SinR; Bacillus subtilis; Biofilm regulation
MeSH headings : Bacillus subtilis / metabolism; Bacterial Proteins / chemistry; Biofilms; Nuclear Magnetic Resonance, Biomolecular; Protein Structure, Secondary
TL;DR:
The full-length backbone and side chain chemical shift values in addition to the experimentally derived secondary structure predictions are reported as the first step towards directly studying the complex interaction dynamics between SinR and SinI.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
15. Life on Land
(OpenAlex)
Source: Web Of Science
Added: August 6, 2018
2014 journal article
Chemical shift assignments and secondary structure prediction of the phosphorelay protein VanU from Vibrio anguillarum
BIOMOLECULAR NMR ASSIGNMENTS, 8(1), 177–179.
author keywords: VanU; NMR; Vibrio anguillarum; Phosphorelay
MeSH headings : Bacterial Proteins / chemistry; Nuclear Magnetic Resonance, Biomolecular; Phosphotransferases / chemistry; Protein Structure, Secondary; Vibrio / metabolism
TL;DR:
The 1H, 13C, and 15N backbone and side chain resonance assignments and secondary structure prediction for VanU from V. anguillarum are reported.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
14. Life Below Water
(OpenAlex)
Source: Web Of Science
Added: August 6, 2018
2014 journal article
Small-Molecule Suppression of beta-Lactam Resistance in Multidrug-Resistant Gram-Negative Pathogens
JOURNAL OF MEDICINAL CHEMISTRY, 57(17), 7450–7458.
MeSH headings : Animals; Cell Line; Cell Survival / drug effects; Drug Resistance, Multiple, Bacterial / drug effects; Gram-Negative Bacteria / classification; Gram-Negative Bacteria / drug effects; Hemolysis / drug effects; Humans; Keratinocytes / cytology; Keratinocytes / drug effects; Microbial Sensitivity Tests; Sheep; Small Molecule Libraries / chemistry; Small Molecule Libraries / pharmacology; beta-Lactam Resistance / drug effects
TL;DR:
A small molecule was identified from this library of aryl amide 2-aminoimidazoles that is capable of lowering the minimum inhibitory concentration of β-lactam antibiotics by up to 64-fold.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science; OpenAlex)
Source: Web Of Science
Added: August 6, 2018
2014 journal article
Structure and DNA-Binding Traits of the Transition State Regulator AbrB
STRUCTURE, 22(11), 1650–1656.
MeSH headings : Bacillus subtilis / metabolism; Bacterial Proteins / chemistry; Bacterial Proteins / metabolism; Binding Sites; DNA, Bacterial / metabolism; DNA-Binding Proteins / chemistry; DNA-Binding Proteins / metabolism; Magnetic Resonance Spectroscopy; Mass Spectrometry; Molecular Docking Simulation; Protein Multimerization; Protein Structure, Secondary; Transcription Factors / chemistry; Transcription Factors / metabolism
TL;DR:
It is noted that AbrB possesses a strip of positive electrostatic potential encompassing its DNA-binding region and that its C-terminal domain aids in DNA binding.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2013 journal article
Chemical crosslinking and LC/MS analysis to determine protein domain orientation: Application to AbrB
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS, 431(2), 253–257.
author keywords: NMR; Solution structure; Chemical crosslinking; Domain orientation; AbrB; Gas-phase cleavable
MeSH headings : Amino Acid Sequence; Bacterial Proteins / chemistry; Chromatography, Liquid; Cross-Linking Reagents / chemistry; DNA-Binding Proteins / chemistry; Molecular Sequence Data; Protein Structure, Tertiary; Tandem Mass Spectrometry; Transcription Factors / chemistry
TL;DR:
This work solved the NMR structures of both domains independently and utilized gas-phase cleavable chemical crosslinking and LC/MS(n) analysis to correctly position the domains within the full tetrameric AbrB protein structure.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2012 journal article
Evaluation of the toxicity of 2-aminoimidazole antibiofilm agents using both cellular and model organism systems
DRUG AND CHEMICAL TOXICOLOGY, 35(3), 310–315.
author keywords: 2-aminoimidazole; adjuvant; biofilm; Caenorhabditis elegans; toxicity; Toxicity of 2-aminoimidazole; antibiofilm agents
MeSH headings : Adjuvants, Pharmaceutic / toxicity; Animals; Anti-Bacterial Agents / pharmacology; Anti-Bacterial Agents / toxicity; Biofilms / drug effects; Caenorhabditis elegans; Cell Line; Dose-Response Relationship, Drug; Environmental Exposure; Fertility / drug effects; Humans; Imidazoles / pharmacology; Imidazoles / toxicity; Keratinocytes / metabolism; Tetrazolium Salts; Thiazoles; Toxicity Tests
TL;DR:
The most effective antibiofilm compound had significant effects when used in conjunction with several standard antibiotics against resistant bacteria and was found to maintain the same low level of toxicity as when acting alone, bolstering its candidacy for further testing as an adjuvant.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2012 journal article
H-1, C-13, and N-15 resonance assignments and secondary structure prediction of the full-length transition state regulator AbrB from Bacillus anthracis
BIOMOLECULAR NMR ASSIGNMENTS, 6(1), 95–98.
author keywords: AbrB; NMR; Bacillus anthracis; Transition state regulator
MeSH headings : Bacillus anthracis; Bacterial Proteins / chemistry; DNA-Binding Proteins / chemistry; Nuclear Magnetic Resonance, Biomolecular; Protein Structure, Secondary; Transcription Factors / chemistry
TL;DR:
Backbone and sidechain resonance assignments and secondary structure prediction for the full-length AbrB protein from B. anthracis are reported.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2012 journal article
Identification of BfmR, a Response Regulator Involved in Biofilm Development, as a Target for a 2-Aminoimidazole-Based Antibiofilm Agent
BIOCHEMISTRY, 51(49), 9776–9778.
MeSH headings : Acinetobacter baumannii / drug effects; Acinetobacter baumannii / growth & development; Bacterial Proteins / chemistry; Bacterial Proteins / physiology; Biofilms / drug effects; Imidazoles / pharmacology; Microscopy, Confocal; Models, Molecular
TL;DR:
The 2AI compound studied here represents a unique small molecule scaffold that targets bacterial response regulators and is cell permeable, while pull-down assays identified BfmR, a response regulator that is the master controller of biofilm formation, as a target for this compound.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2012 journal article
Structural insights into the calcium-dependent interaction between calbindin-D28K and caspase-3
FEBS LETTERS, 586(20), 3582–3589.
author keywords: Calbindin-D28K; Caspase-3; Isothermal titration calorimetry; Molecular docking
MeSH headings : Calbindins; Calcium / metabolism; Caspase 3 / chemistry; Caspase 3 / metabolism; Enzyme Activation; Hydrogen Bonding; Molecular Docking Simulation; Protein Binding; Protein Conformation; S100 Calcium Binding Protein G / chemistry; S100 Calcium Binding Protein G / metabolism
TL;DR:
Calbindin‐D28K and Caspase‐3 bind by isothermal titration calorimetry and this results in new insights into the mechanism by which these molecules bind to each other.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2011 review
Anti-biofilm compounds derived from marine sponges
[Review of ]. Marine Drugs, 9(10), 2010–2035.
Source: NC State University Libraries
Added: August 6, 2018
2011 journal article
Flustramine inspired synthesis and biological evaluation of pyrroloindoline triazole amides as novel inhibitors of bacterial biofilms
ORGANIC & BIOMOLECULAR CHEMISTRY, 9(15), 5476–5481.
MeSH headings : Amides / chemical synthesis; Amides / chemistry; Amides / pharmacology; Anti-Bacterial Agents / chemical synthesis; Anti-Bacterial Agents / chemistry; Anti-Bacterial Agents / pharmacology; Bacteria / drug effects; Biofilms / drug effects; Indole Alkaloids / chemistry; Indoles / chemical synthesis; Indoles / chemistry; Indoles / pharmacology; Inhibitory Concentration 50; Molecular Structure; Pyrroles / chemical synthesis; Pyrroles / chemistry; Pyrroles / pharmacology; Quantitative Structure-Activity Relationship; Small Molecule Libraries / chemical synthesis; Small Molecule Libraries / chemistry; Small Molecule Libraries / pharmacology
TL;DR:
Screening for the ability to modulate biofilm formation against strains of Gram-positive and Gram-negative bacteria identified several compounds with low micromolar, non-toxic IC(50) values.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2011 journal article
Intercepting Bacterial Indole Signaling with Flustramine Derivatives
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 133(50), 20160–20163.
MeSH headings : Escherichia coli / metabolism; Hydrocarbons, Brominated / metabolism; Indole Alkaloids / metabolism; Indoles / metabolism; Signal Transduction; Staphylococcus aureus / metabolism
TL;DR:
DFBr derivatives are found that are 10-1000 times more active than indole itself, demonstrating that the flustramine family of indolic natural products represent a privileged scaffold for the design of molecules to control pathogenic bacterial behavior.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2011 journal article
Observing selected domains in multi-domain proteins via sortase-mediated ligation and NMR spectroscopy
JOURNAL OF BIOMOLECULAR NMR, 49(1), 3–7.
author keywords: Segmental labeling; Sortase A; Protein ligation; MecA; Enzyme-mediated ligation; NMR
MeSH headings : Amino Acid Sequence; Aminoacyltransferases / metabolism; Bacterial Proteins / chemistry; Bacterial Proteins / metabolism; Cysteine Endopeptidases / metabolism; Magnetic Resonance Spectroscopy; Molecular Sequence Data; Nitrogen Isotopes / chemistry; Nuclear Magnetic Resonance, Biomolecular; Protein Structure, Tertiary; Proteins / chemistry; Proteins / metabolism; Recombinant Fusion Proteins / chemistry; Recombinant Fusion Proteins / metabolism; Staphylococcus aureus / enzymology
TL;DR:
It is shown that the S. aureus transpeptidase sortase A can be used to catalyze the ligation of two separately expressed domains of the same protein, MecA (B. subtilis), and the resultant HSQC spectrum obtained from this domain-labeled conjugate demonstrates successful application ofsortase A for segmental labeling of multi-domain proteins for solution NMR study.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2010 journal article
Binding site on human immunoglobulin G for the affinity ligand HWRGWV
Journal of Molecular Recognition, 23(3), 271–282.
Source: NC State University Libraries
Added: August 6, 2018
2010 journal article
Long range dynamic effects of point-mutations trap a response regulator in an active conformation
FEBS LETTERS, 584(19), 4203–4207.
author keywords: NMR; Conformational transition; Intra-protein communication; Response regulator; Spo0F
MeSH headings : Bacillus subtilis / genetics; Bacillus subtilis / metabolism; Bacterial Proteins / chemistry; Bacterial Proteins / genetics; Bacterial Proteins / metabolism; Models, Molecular; Mutagenesis, Site-Directed; Mutant Proteins / chemistry; Mutant Proteins / genetics; Mutant Proteins / metabolism; Nuclear Magnetic Resonance, Biomolecular; Point Mutation; Principal Component Analysis; Protein Conformation; Second Messenger Systems / genetics; Signal Transduction / genetics; Thermodynamics
TL;DR:
It is shown that point‐mutations, distant from an essential highly dynamic kinase recognition loop in the response regulator Spo0F, lock this loop in an active conformation, which results in functionally hyperactive Spo0f.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2010 journal article
NMR Solution Structure and DNA-binding Model of the DNA-binding Domain of Competence Protein A
JOURNAL OF MOLECULAR BIOLOGY, 398(2), 248–263.
author keywords: competence; ComA; NMR; two-component; response regulator
MeSH headings : Amino Acid Sequence; Bacillus subtilis / metabolism; Bacterial Proteins / chemistry; Bacterial Proteins / genetics; Bacterial Proteins / metabolism; DNA / chemistry; DNA / metabolism; DNA-Binding Proteins / chemistry; DNA-Binding Proteins / genetics; DNA-Binding Proteins / metabolism; Escherichia coli Proteins / chemistry; Escherichia coli Proteins / genetics; Escherichia coli Proteins / metabolism; Helix-Turn-Helix Motifs; Models, Molecular; Molecular Sequence Data; Nuclear Magnetic Resonance, Biomolecular; Protein Structure, Tertiary
TL;DR:
Using NMR spectroscopy, the high-resolution 3D solution structure of the C-terminal DNA-binding domain of ComA (ComAC) has been determined and a model of ComAC bound to the ComA recognition sequences on the srfA promoter has been developed, suggesting a basis for DNA binding specificity within the NarL family.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2010 journal article
Synergistic Effects between Conventional Antibiotics and 2-Aminoimidazole-Derived Antibiofilm Agents
ANTIMICROBIAL AGENTS AND CHEMOTHERAPY, 54(5), 2112–2118.
MeSH headings : Acinetobacter baumannii / drug effects; Anti-Bacterial Agents / pharmacology; Bacteria / drug effects; Biofilms / drug effects; Calcium Chloride / pharmacology; Chlorides / pharmacology; Colistin / pharmacology; Drug Resistance, Bacterial; Drug Resistance, Multiple; Drug Synergism; Enterococcus faecium / drug effects; Erythrocytes / drug effects; Escherichia coli / drug effects; Humans; Imidazoles / chemistry; Imidazoles / pharmacology; Magnesium / pharmacology; Manganese Compounds / pharmacology; Methicillin-Resistant Staphylococcus aureus / drug effects; Novobiocin / pharmacology; Staphylococcus epidermidis / drug effects; Tobramycin / pharmacology; Triazoles / pharmacology
TL;DR:
The synergistic effect between a 2-aminoimidazole/triazole conjugate and antibiotics toward dispersing preestablished biofilms, culminating with a 3-orders-of-magnitude increase of biofilm dispersion toward Staphylococcus aureus biofilmms is reported.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2009 journal article
Amide Isosteres of Oroidin: Assessment of Antibiofilm Activity and C. elegans Toxicity
JOURNAL OF MEDICINAL CHEMISTRY, 52(15), 4582–4585.
MeSH headings : Amides / chemical synthesis; Amides / pharmacology; Amides / toxicity; Animals; Anti-Bacterial Agents / chemical synthesis; Anti-Bacterial Agents / pharmacology; Biofilms / drug effects; Caenorhabditis elegans / drug effects; Pseudomonas aeruginosa / drug effects; Pseudomonas aeruginosa / physiology; Pyrroles / chemical synthesis; Pyrroles / pharmacology; Pyrroles / toxicity; Structure-Activity Relationship; Sulfonamides / chemical synthesis; Sulfonamides / pharmacology; Thiourea / chemical synthesis; Thiourea / pharmacology; Urea / chemical synthesis; Urea / pharmacology
TL;DR:
The synthesis and antibiofilm activities of sulfonamide, urea, and thiourea oroidin analogues are described and the most active derivative was able to selectively inhibit P. aeruginosa biofilm development and is also shown to be nontoxic upward of 1 mM to the development of C. elegans.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2009 journal article
Binding site on human immunoglobulin G for the affinity ligand HWRGWV
Journal of Molecular Recognition, n/a-n/a.
author keywords: hexamer ligand; immunoglobulin G; glycosylation; mass spectrometry; computational docking; binding site
MeSH headings : Amino Acid Sequence; Animals; Binding Sites; Endopeptidases / metabolism; Humans; Immunoglobulin Fc Fragments / metabolism; Immunoglobulin G / chemistry; Immunoglobulin G / metabolism; Ligands; Models, Molecular; Molecular Sequence Data; Nerve Tissue Proteins / metabolism; Oligopeptides / chemistry; Oligopeptides / genetics; Oligopeptides / metabolism; Pepsin A / metabolism; Protein Binding; Protein Structure, Tertiary; Sequence Alignment; Staphylococcal Protein A / metabolism
TL;DR:
The results support the fact that a peptide as small as a hexamer can have specific interactions with large proteins such as hIgG and the HWRGWV ligand.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Crossref
Added: February 24, 2020
2009 journal article
Evaluation of dihydrooroidin as an antifouling additive in marine paint
INTERNATIONAL BIODETERIORATION & BIODEGRADATION, 63(4), 529–532.
author keywords: Antifouling; Biofilms; Natural products
TL;DR:
Dihydrooroidin (DHO) is presented as an effective paint-based, non-cytotoxic, antifouling agent against marine biofouling processes in a marine mesocosm.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
14. Life Below Water
(OpenAlex)
Source: Web Of Science
Added: August 6, 2018
2009 journal article
Structural Characterization of the Conformational Change in Calbindin-D-28k upon Calcium Binding Using Differential Surface Modification Analyzed by Mass Spectrometry
BIOCHEMISTRY, 48(36), 8603–8614.
MeSH headings : Amino Acid Sequence; Animals; Apoproteins / chemistry; Calbindin 1; Calbindins; Cysteine / chemistry; Disulfides / chemistry; EF Hand Motifs; Hydrogen Bonding; Magnetic Resonance Spectroscopy; Molecular Sequence Data; Protein Binding; Protein Conformation; Protein Structure, Tertiary; Rats; S100 Calcium Binding Protein G / chemistry; S100 Calcium Binding Protein G / metabolism; Spectrometry, Mass, Electrospray Ionization; Tandem Mass Spectrometry
TL;DR:
Differential surface modification of lysine and histidine residues analyzed by mass spectrometry has been used in this study to identify, for the first time, the specific regions of calbindin-D28k undergoing conformational changes between the holo and apo states and indicate that there is predominantly no disulfide bond between these residues in the apoprotein.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2009 journal article
Structural and Motional Contributions of the Bacillus subtilis ClpC N-Domain to Adaptor Protein Interactions
JOURNAL OF MOLECULAR BIOLOGY, 387(3), 639–652.
author keywords: competence; adaptor protein proteosome interactions; HSP100/Clp N-domain; NMR dynamics
MeSH headings : Adaptor Proteins, Vesicular Transport / chemistry; Adaptor Proteins, Vesicular Transport / genetics; Adaptor Proteins, Vesicular Transport / metabolism; Amino Acid Sequence; Bacillus subtilis / genetics; Bacillus subtilis / metabolism; Bacterial Proteins / chemistry; Bacterial Proteins / genetics; Bacterial Proteins / metabolism; Heat-Shock Proteins / chemistry; Heat-Shock Proteins / genetics; Heat-Shock Proteins / metabolism; Models, Molecular; Molecular Sequence Data; Nuclear Magnetic Resonance, Biomolecular; Protein Binding; Protein Structure, Secondary; Sequence Alignment; Static Electricity
TL;DR:
NMR experiments used to map the MecA adaptor protein interaction surface of N-ClpCR reveal that regions involved in the interaction possess conformational flexibility and conformational exchange on the microsecond-to-millisecond timescale.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2008 journal article
Co-Evolving Motions at Protein−Protein Interfaces of Two-Component Signaling Systems Identified by Covariance Analysis†
Biochemistry, 47(30), 7782–7784.
MeSH headings : Analysis of Variance; Bacterial Proteins / chemistry; Bacterial Proteins / metabolism; Binding Sites; Magnetic Resonance Spectroscopy; Protein Binding; Protein Structure, Secondary; Protein Structure, Tertiary; Proteins / chemistry; Proteins / metabolism; Signal Transduction
TL;DR:
C covariance is shown to identify a cluster of co-evolving dynamic residues in two-component proteins and NMR dynamics and structural studies suggest that motions serve to precisely arrange the site of phosphoryl transfer within the complex.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Crossref, Web Of Science
Added: August 6, 2018
2008 journal article
Control of bacterial biofilms with marine alkaloid derivatives
MOLECULAR BIOSYSTEMS, 4(6), 614–621.
MeSH headings : Acinetobacter baumannii / drug effects; Acylation; Alkaloids / chemical synthesis; Alkaloids / chemistry; Alkaloids / pharmacology; Animals; Anti-Bacterial Agents / chemical synthesis; Anti-Bacterial Agents / chemistry; Anti-Bacterial Agents / pharmacology; Biofilms / drug effects; Biofilms / growth & development; Bordetella bronchiseptica / drug effects; Cell Line; Dose-Response Relationship, Drug; Imidazoles / chemical synthesis; Imidazoles / chemistry; Imidazoles / pharmacology; Mice; Microbial Sensitivity Tests; Molecular Structure; Pseudomonas aeruginosa / drug effects; Rats; Staphylococcus aureus / drug effects
TL;DR:
It is demonstrated that TAGE does not have selective toxicity against cells within the biofilm state, will inhibit biofilm development under flow conditions, indicating that the CV staining protocol correlates with the ability to be active under biomimetic conditions, and will disperse preformed P. aeruginosa biofilms.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
14. Life Below Water
(OpenAlex)
Source: Web Of Science
Added: August 6, 2018
2008 journal article
Inhibition and dispersion of proteobacterial biofilms
Chemical Communications, (14), 1698.
MeSH headings : Biofilms / drug effects; Biofilms / growth & development; Dose-Response Relationship, Drug; Imidazoles / chemistry; Imidazoles / pharmacology; Inhibitory Concentration 50; Molecular Structure; Proteobacteria / drug effects; Proteobacteria / growth & development; Proteobacteria / physiology; Pyrroles / chemistry; Pyrroles / pharmacology
TL;DR:
A small molecule derived from a marine natural product with the ability to inhibit biofilm formation and also disperse established proteobacterial biofilms is presented.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
14. Life Below Water
(OpenAlex)
Sources: Crossref, NC State University Libraries
Added: August 6, 2018
2008 journal article
Insights into the Nature of DNA Binding of AbrB-like Transcription Factors
STRUCTURE, 16(11), 1702–1713.
MeSH headings : Bacillus subtilis / metabolism; Bacterial Proteins / chemistry; Bacterial Proteins / metabolism; Binding Sites; DNA / chemistry; DNA / metabolism; DNA-Binding Proteins / chemistry; DNA-Binding Proteins / metabolism; Hydrogen Bonding; Magnetic Resonance Spectroscopy; Models, Molecular; Protein Conformation; Thermodynamics; Transcription Factors / chemistry; Transcription Factors / metabolism
TL;DR:
RDC-refined NMR solution structures and dynamic properties of the DNA-binding domains of three Bacillus subtilis transition-state regulators: AbrB, Abh, and SpoVT are presented and a structural model of the complex between AbrBN(55) and its cognate promoter, abrB8 is generated.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
15. Life on Land
(OpenAlex)
Source: Web Of Science
Added: August 6, 2018
2008 journal article
Targeting RNA with cysteine-constrained peptides
BIOORGANIC & MEDICINAL CHEMISTRY LETTERS, 18(2), 565–567.
author keywords: RNA; cyclic peptides; HADDOCK
MeSH headings : Base Sequence; Cysteine / chemistry; Humans; Models, Molecular; Peptides, Cyclic / chemistry; RNA / chemistry
TL;DR:
This approach has successfully identified novel cyclic peptide constructs that can target bTAR RNA and RNA/peptide interactions were effectively modeled using the HADDOCK docking program.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2007 journal article
Abh and AbrB control of Bacillus subtilis antimicrobial gene expression
JOURNAL OF BACTERIOLOGY, 189(21), 7720–7732.
MeSH headings : Bacillus subtilis / genetics; Bacillus subtilis / growth & development; Bacterial Proteins / genetics; Bacterial Proteins / metabolism; Base Sequence; Binding Sites; DNA-Binding Proteins / genetics; DNA-Binding Proteins / metabolism; Gene Expression Regulation, Bacterial; Genes, Bacterial; Kinetics; Molecular Sequence Data; Mutation; Plasmids; Transcription Factors / genetics; Transcription Factors / metabolism
TL;DR:
Abh is part of the complex interconnected regulatory system that controls gene expression during the transition from active growth to stationary phase and is subject to a degree of AbrB-affording negative regulation.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
15. Life on Land
(OpenAlex)
Source: Web Of Science
Added: August 6, 2018
2007 journal article
NMR assignment of the N-terminal repeat domain of Bacillus subtilis ClpC
BIOMOLECULAR NMR ASSIGNMENTS, 1(2), 163–165.
author keywords: ClpC; Bacillus subtilis; N-domain; genetic competence; HSP100/AAA+
MeSH headings : Amino Acid Sequence; Bacterial Proteins / chemistry; Connexins / chemistry; Heat-Shock Proteins / chemistry; Magnetic Resonance Spectroscopy / methods; Protein Structure, Tertiary; Repetitive Sequences, Amino Acid
TL;DR:
The backbone and side-chain assignments of the N-terminal repeat domain (residues 1–145) of ClpC from Bacillus subtilis are presented.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2007 journal article
Peptide binding proclivities of calcium loaded calbindin-D28k
FEBS LETTERS, 581(24), 4778–4782.
author keywords: calbindin-D28k; NMR; chemical shift; peptides; modeling
MeSH headings : Animals; Calbindin 1; Calbindins; Calcium / metabolism; Circular Dichroism; Models, Molecular; Nuclear Magnetic Resonance, Biomolecular; Peptides / metabolism; Protein Binding; Protein Structure, Tertiary; Rats; S100 Calcium Binding Protein G / metabolism; Titrimetry
TL;DR:
It is shown that calbindin‐D28k undergoes significant conformational changes upon binding calcium, whereas only minor changes occur when binding target peptides in its Ca2+‐loaded state.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2007 journal article
Predominantly buried residues in the response regulator Spo0F influence specific sensor kinase recognition
FEBS LETTERS, 581(7), 1425–1429.
author keywords: sporulation; kinases; Spo0F mutants
MeSH headings : Alanine / chemistry; Alanine / genetics; Amino Acid Sequence; Amino Acid Substitution; Bacillus subtilis / metabolism; Bacillus subtilis / physiology; Bacterial Proteins / chemistry; Bacterial Proteins / genetics; Bacterial Proteins / metabolism; Histidine Kinase; Nuclear Magnetic Resonance, Biomolecular; Protein Conformation; Protein Interaction Mapping; Protein Kinases / chemistry; Protein Kinases / metabolism; Protein Structure, Secondary; Spores, Bacterial
TL;DR:
How buried residues and intra‐protein communication networks contribute to precise molecular recognition by ensuring that the correct surface is presented is discussed.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2007 journal article
Tandem mass spectrometry acquisition approaches to enhance identification of protein-protein interactions using low-energy collision-induced dissociative chemical crosslinking reagents
RAPID COMMUNICATIONS IN MASS SPECTROMETRY, 21(21), 3395–3408.
MeSH headings : Amino Acid Sequence; Bacillus subtilis / chemistry; Bacillus subtilis / metabolism; Bacterial Proteins / chemistry; Cross-Linking Reagents / chemistry; DNA-Binding Proteins / chemistry; Molecular Sequence Data; Peptide Mapping; Peptides / chemistry; Protein Conformation; Spectrometry, Mass, Electrospray Ionization; Tandem Mass Spectrometry / methods; Transcription Factors / chemistry
TL;DR:
The ability to segregate intrapeptide and interpeptide crosslinks using ITCID represents the first step towards high-throughput analysis of protein-protein cross links using the CID-CXL reagents.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
7. Affordable and Clean Energy
(OpenAlex)
Source: Web Of Science
Added: August 6, 2018
2006 journal article
Measurement of multisite oxidation kinetics reveals an active site conformational change in Spo0F as a result of protein oxidation
BIOCHEMISTRY, 45(20), 6260–6266.
MeSH headings : Bacterial Proteins / chemistry; Bacterial Proteins / metabolism; Binding Sites; Circular Dichroism; Kinetics; Mass Spectrometry; Methionine / metabolism; Models, Molecular; Oxidation-Reduction; Phosphorylation; Protein Conformation; Structure-Activity Relationship
TL;DR:
It is found that oxidation causes a three-stage conformational change in Spo0F, a regulator of sporulation in Bacillus subtilis, and the dramatic structural changes affect only the region surrounding the active site, while the remainder of the structure remains relatively unperturbed.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2006 journal article
NMR structure of AbhN and comparison with AbrBN - First insights into the DNA binding promiscuity and specificity of AbrB-like transition state regulator proteins
JOURNAL OF BIOLOGICAL CHEMISTRY, 281(30), 21399–21409.
MeSH headings : Amino Acid Sequence; Bacillus subtilis / enzymology; Bacterial Proteins / metabolism; Cloning, Molecular; DNA / chemistry; DNA-Binding Proteins / chemistry; DNA-Binding Proteins / metabolism; Deoxyribonuclease I / chemistry; In Vitro Techniques; Magnetic Resonance Spectroscopy; Models, Molecular; Molecular Sequence Data; Protein Binding; Sequence Homology, Amino Acid; Transcription Factors / metabolism
TL;DR:
The high resolution NMR solution structure of the N-terminal domain of the Bacillus subtilis transition state regulator Abh (AbhN) is presented, only the second such structure to date, and the results of accompanying in vitro DNA-binding studies serve to highlight binding differences between the two proteins.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
15. Life on Land
(OpenAlex)
Source: Web Of Science
Added: August 6, 2018
2006 journal article
Structure, binding interface and hydrophobic transitions of Ca2+-loaded calbindin-D-28K
Nature Structural & Molecular Biology, 13(7), 641–647.
Source: NC State University Libraries
Added: August 6, 2018
2006 journal article
Structure, binding interface and hydrophobic transitions of Ca2+-loaded calbindin-D28K
Nature Structural & Molecular Biology, 13(7), 641–647.
MeSH headings : Amino Acid Sequence; Animals; Binding Sites; Calbindins; Calcium / metabolism; Cloning, Molecular; Hydrogen Bonding; Magnetic Resonance Spectroscopy; Models, Molecular; Peptides / chemistry; Protein Folding; Protein Structure, Secondary; Rats; Recombinant Proteins / chemistry; Recombinant Proteins / metabolism; S100 Calcium Binding Protein G / chemistry; S100 Calcium Binding Protein G / metabolism
TL;DR:
The structure, binding interface and hydrophobic characteristics of Ca2+-loaded calbindin-D28K provide the first detailed insights into how this essential protein may function.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Crossref
Added: August 28, 2020
2005 journal article
(4,2)D projection-reconstruction experiments for protein backbone assignment: Application to human carbonic anhydrase II and calbindin D-28K
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 127(24), 8785–8795.
MeSH headings : Calbindins; Carbonic Anhydrase II / chemistry; Humans; Nuclear Magnetic Resonance, Biomolecular / methods; S100 Calcium Binding Protein G / chemistry
TL;DR:
This work shows that projection-reconstruction NMR techniques can be extended to larger protonated and perdeuterated proteins and presents a suite of (4,2)D triple-resonance experiments for protein backbone assignment and a Hybrid Backprojection/Lower-Value algorithm for reconstructing data with relatively weak signal-to-noise ratios.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2005 journal article
Revised structure of the AbrB N-terminal domain unifies a diverse superfamily of putative DNA-binding proteins
FEBS LETTERS, 579(25), 5669–5674.
author keywords: NMR solution structure; protein-DNA interactions; structural genomics; structural classification of proteins
MeSH headings : Amino Acid Sequence; Bacillus subtilis / metabolism; Bacterial Proteins; DNA-Binding Proteins / chemistry; DNA-Binding Proteins / classification; Dimerization; Escherichia coli Proteins / chemistry; Molecular Sequence Data; Protein Structure, Tertiary; Transcription Factors / chemistry; Transcription Factors / classification
TL;DR:
The putative DNA‐binding site of AbrB is found on the same face as the DNA‐ binding site of MazE and appears similar, both in structure and sequence, to the exposed conserved region of MraZ, which strongly suggests that MRAZ also binds DNA and allows for a consensus model of DNA recognition by the members of this novel protein superfamily.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science; OpenAlex)
Source: Web Of Science
Added: August 6, 2018
2005 journal article
Solution structure and dynamics of LuxU from Vibrio harveyi, a phosphotransferase protein involved in bacterial quorum sensing
JOURNAL OF MOLECULAR BIOLOGY, 347(2), 297–307.
author keywords: quorum-sensing; NMR; solution structure; LuxU; bioluminescence
MeSH headings : Amino Acid Sequence; Bacterial Proteins / chemistry; Bacterial Proteins / genetics; Bacterial Proteins / metabolism; Binding Sites; Models, Molecular; Molecular Sequence Data; Phosphoproteins / chemistry; Phosphoproteins / genetics; Phosphoproteins / metabolism; Protein Structure, Tertiary; Sequence Alignment; Sequence Homology, Amino Acid; Vibrio / metabolism
TL;DR:
The studies described here represent the first structural characterization of an isolated, monomeric bacterial phosphotransferase protein, LuxU, which acts to shuttle the phosphate from the membrane-bound proteins, LuxN and LuxQ, to LuxO.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
14. Life Below Water
(OpenAlex)
Source: Web Of Science
Added: August 6, 2018
2005 journal article
Structural analysis of divalent metals binding to the Bacillus subtilis response regulator Spo0F: the possibility for In vitro metalloregulation in the initiation of sporulation
BIOMETALS, 18(5), 449–466.
author keywords: metal binding; NMR spectroscopy; response regulator; sporulation; two-component signal transduction
MeSH headings : Amino Acid Sequence; Bacillus subtilis / chemistry; Bacillus subtilis / physiology; Bacterial Proteins / chemistry; Bacterial Proteins / drug effects; Calcium / chemistry; Calcium / pharmacology; Copper / chemistry; Copper / pharmacology; Crystallography, X-Ray; In Vitro Techniques; Magnesium / chemistry; Magnesium / pharmacology; Magnetic Resonance Spectroscopy / methods; Magnetic Resonance Spectroscopy / standards; Manganese / chemistry; Manganese / pharmacology; Models, Molecular; Molecular Sequence Data; Phosphorylation / drug effects; Protein Binding; Protein Conformation; Protein Kinases / chemistry; Protein Kinases / drug effects; Reference Standards; Signal Transduction / drug effects; Signal Transduction / physiology; Spectrometry, Mass, Electrospray Ionization / methods; Spores, Bacterial / metabolism; Structure-Activity Relationship
TL;DR:
Metal binding studies of the Bacillus subtilis response regulator Spo0F using NMR and μESI-MS show that the divalent metals Ca2+, Mg2+ and Mn2+ primarily bind, as expected, in the Asp pocket phosphorylation site, while Cu2+ fails to support KinA phosphotransfer.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2004 journal article
Evaluation of the DNA Binding Tendencies of the Transition State Regulator AbrB†
Biochemistry, 43(51), 16106–16118.
MeSH headings : Bacillus subtilis / metabolism; Circular Dichroism; DNA / chemistry; DNA / metabolism; Kinetics; Protein Binding / physiology; Spectrometry, Mass, Electrospray Ionization; Transcription Factors / chemistry; Transcription Factors / metabolism
TL;DR:
This comprehensive and corroborative spectroscopic study endorses the use of microESI-MS for rapidly ascertaining qualitative binding trends in noncovalent systems in a high-throughput manner.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, Crossref
Added: August 6, 2018
2004 journal article
H-1, N-15, and C-13 chemical shift assignments of the Vibrio harveyi histidine phosphotransferase protein LuxU
JOURNAL OF BIOMOLECULAR NMR, 29(4), 551–552.
MeSH headings : Bacterial Proteins / chemistry; Carbon Isotopes; Hydrogen; Magnetic Resonance Spectroscopy; Nitrogen Isotopes; Phosphoproteins / chemistry; Vibrio / chemistry; Vibrio / enzymology
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2004 journal article
Status of systems biology - does it have a future?
Drug Discovery Today: BIOSILICO, 2(5), 171–174.
Source: Crossref
Added: August 28, 2020
2004 article
Sub-classification of response regulators using the surface characteristics of their receiver domains (FEBS 27785) (vol 554, pg 231, 2003)
Kojetin, D. J., Thompson, R. J., & Cavanagh, J. (2004, February 27). FEBS LETTERS, Vol. 560, pp. 227–228.
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2003 journal article
Calbindin D-28K interacts with Ran-binding protein M: identification of interacting domains by NMR spectroscopy
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS, 303(4), 1186–1192.
MeSH headings : Adaptor Proteins, Signal Transducing; Amino Acid Sequence; Binding Sites; Calbindins; Cytoskeletal Proteins; Magnetic Resonance Spectroscopy; Molecular Sequence Data; Nuclear Proteins / chemistry; Nuclear Proteins / metabolism; Precipitin Tests; Protein Structure, Tertiary; S100 Calcium Binding Protein G / chemistry; S100 Calcium Binding Protein G / metabolism; ran GTP-Binding Protein / chemistry; ran GTP-Binding Protein / metabolism
TL;DR:
Using NMR methods, a peptide, LASIKNR, derived from Ran-binding protein M, interacts with several regions of the calcium-loaded calbindin D(28K) including the amino terminus and two other regions that exhibit conformational exchange on the NMR timescale.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2003 journal article
In-line desalting mass spectrometry for the study of noncovalent biological complexes
ANALYTICAL CHEMISTRY, 75(14), 3281–3286.
MeSH headings : Biopolymers / chemistry; Chromatography, Gel; DNA / chemistry; Indicators and Reagents; Oligonucleotides / chemistry; Proteins / chemistry; RNA / chemistry; Spectrometry, Mass, Electrospray Ionization / methods
TL;DR:
The method is shown to provide rapid direct analysis of analyte solutions containing salts, glycerol, organics, and involatile buffers without deleterious effects and to demonstrate its usefulness by examining protein-metal, protein-protein,protein-DNA, and protein-RNA interactions.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2003 journal article
Protein-metal ion interactions, stoichiometries and relative affinities determined by on-line size exclusion gel filtration mass spectrometry
RAPID COMMUNICATIONS IN MASS SPECTROMETRY, 17(4), 267–271.
MeSH headings : Animals; Brain Chemistry; Calbindins; Calcium / chemistry; Carrier Proteins / chemistry; Chromatography, Gel / methods; Magnesium / chemistry; Mass Spectrometry / methods; Metals / chemistry; Proteins / chemistry; Rats; S100 Calcium Binding Protein G / chemistry
TL;DR:
It is shown that SEC/microESI-MS and RILED/MS can be used to determine calcium ion binding stoichiometries to a high-affinity, metal ion binding protein, calbindin D(28K).
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2003 journal article
Sub-classification of response regulators using the surface characteristics of their receiver domains
FEBS LETTERS, 554(3), 231–236.
author keywords: OmpR sub-families; homology modeling
MeSH headings : Bacillus subtilis / chemistry; Bacillus subtilis / metabolism; Bacterial Proteins / chemistry; Bacterial Proteins / classification; Bacterial Proteins / genetics; Bacterial Proteins / metabolism; Escherichia coli / chemistry; Escherichia coli / metabolism; Genes, Regulator; Histidine Kinase; Hydrophobic and Hydrophilic Interactions; Models, Molecular; Protein Kinases / genetics; Protein Kinases / metabolism; Protein Structure, Secondary; Protein Structure, Tertiary; Structural Homology, Protein; Trans-Activators / chemistry; Trans-Activators / classification; Trans-Activators / genetics
TL;DR:
Comparison based homology modeling of the receiver domains of the OmpR sub‐family of response regulators in Bacillus subtilis and Escherichia coli suggests further sub‐classification is possible.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2003 journal article
The effects of Ca2+ binding on the conformation of calbindin D-28K: A nuclear magnetic resonance and microelectrospray mass spectrometry study
ANALYTICAL BIOCHEMISTRY, 317(1), 59–66.
author keywords: calbindin D-28K; EF-hand; conformational response to calcium binding
MeSH headings : Apoproteins / chemistry; Calbindins; Calcium / metabolism; EF Hand Motifs; Escherichia coli Proteins / chemistry; Escherichia coli Proteins / genetics; Escherichia coli Proteins / metabolism; Molecular Weight; Nitrogen Isotopes; Nuclear Magnetic Resonance, Biomolecular / methods; Protein Binding; Recombinant Fusion Proteins / chemistry; Recombinant Fusion Proteins / genetics; Recombinant Fusion Proteins / metabolism; S100 Calcium Binding Protein G / chemistry; S100 Calcium Binding Protein G / genetics; S100 Calcium Binding Protein G / metabolism; Spectrometry, Mass, Electrospray Ionization / methods
TL;DR:
The results support the opinion that calbindin D(28K) has characteristics of both a calcium sensor and a buffer.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2002 journal article
Alternative splicing of a beta(4) subunit proline-rich motif regulates voltage-dependent gating and toxin block of Ca(v)2.1 Ca2+ channels
Journal of Neuroscience, 22(21), 9331–9339.
MeSH headings : Alternative Splicing / physiology; Amino Acid Motifs / physiology; Animals; Brain / metabolism; Calcium Channel Blockers / pharmacology; Calcium Channels, N-Type / drug effects; Calcium Channels, N-Type / genetics; Calcium Channels, N-Type / metabolism; Humans; Ion Channel Gating / drug effects; Ion Channel Gating / physiology; Membrane Potentials / physiology; Models, Molecular; Molecular Sequence Data; Mutagenesis, Site-Directed; Nerve Tissue Proteins / genetics; Oocytes / metabolism; Organ Specificity; Patch-Clamp Techniques; Protein Structure, Tertiary / physiology; Protein Subunits / drug effects; Protein Subunits / genetics; Protein Subunits / metabolism; RNA, Messenger / metabolism; Sequence Deletion; Sequence Homology, Amino Acid; Spinal Cord / metabolism; Structure-Activity Relationship; Xenopus laevis; omega-Conotoxins / pharmacology
TL;DR:
The models reveal that alternative splicing of the β4 N terminus results in dramatic differences in surface charge distribution and localize the proline-rich motif of β4b to an extended arm structure that flanks what would be the equivalent of a highly modified PSD-95 carboxylate binding loop.
(via Semantic Scholar)
Source: NC State University Libraries
Added: August 6, 2018
2002 journal article
Current approaches for the study of large proteins by NMR
JOURNAL OF MOLECULAR STRUCTURE, 602, 275–292.
author keywords: NMR; large proteins; structure; methods
TL;DR:
An overview of current methods employed for characterizing larger (>25 kDa) proteins by NMR is presented and the attenuation of T 2 relaxation effects by offsetting dipole–dipole and chemical shift anisotropy relaxation mechanisms is presented.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2002 journal article
Macromolecular assembly of the transition state regulator AbrB in its unbound and complexed states probed by microelectrospray ionization mass spectrometry
ANALYTICAL BIOCHEMISTRY, 306(2), 222–227.
author keywords: AbrB; transition-state regulator; macromolecular assembly; mass spectrometry
MeSH headings : Bacillus subtilis; Bacterial Proteins / chemistry; Bacterial Proteins / metabolism; Chromatography, Gel; DNA / metabolism; DNA-Binding Proteins / chemistry; DNA-Binding Proteins / metabolism; Escherichia coli; Macromolecular Substances; Protein Binding; Recombinant Proteins / chemistry; Recombinant Proteins / metabolism; Spectrometry, Mass, Electrospray Ionization; Transcription Factors / chemistry; Transcription Factors / metabolism
TL;DR:
This study represents the first detailed characterization of the stoichiometry of a transition-state regulator binding to one of its target promoters and demonstrates a capacity for DNA binding, underscoring the role of the N-terminal domain in both DNA recognition and dimerization.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2002 journal article
Stoichiometries of protein - Protein/DNA binding and conformational changes for the transition-state regulator AbrB measured by pseudo cell-size exclusion chromatography-mass spectrometry
BIOCHEMISTRY, 41(25), 7859–7865.
MeSH headings : Bacillus subtilis / chemistry; Bacterial Proteins / chemistry; Chromatography, Gel / instrumentation; Chromatography, Gel / methods; DNA / chemistry; DNA-Binding Proteins / chemistry; Electron Transport; Electron-Transferring Flavoproteins; Flavoproteins / chemistry; Geobacillus stearothermophilus / chemistry; Humans; Mass Spectrometry / instrumentation; Mass Spectrometry / methods; Protein Binding; Protein Conformation; Spectrometry, Mass, Electrospray Ionization / instrumentation; Spectrometry, Mass, Electrospray Ionization / methods; Transcription Factors / chemistry
TL;DR:
On-line pseudo cell-size exclusion chromatography-mass spectrometry (PsC-SEC-MS) enables the efficient determination of gross conformational changes upon complexation and shows that when the complex binds to sinIR, the hydrodynamic volume of the complex is notably reduced compared to that of the apoprotein, indicating a protein conformational change.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
10. Reduced Inequalities
(OpenAlex)
Source: Web Of Science
Added: August 6, 2018
2002 journal article
Structural and catalytic response to temperature and cosolvents of carboxylesterase EST1 from the extremely thermoacidophilic archaeon Sulfolobus solfataricus P1
BIOTECHNOLOGY AND BIOENGINEERING, 80(7), 784–793.
author keywords: DMSO; conformational flexibility; enzyme activation; thermostable
MeSH headings : Acetonitriles / chemistry; Carboxylesterase; Carboxylic Ester Hydrolases / biosynthesis; Carboxylic Ester Hydrolases / chemistry; Carboxylic Ester Hydrolases / isolation & purification; Catalysis; Dimethyl Sulfoxide / chemistry; Dimethylformamide / chemistry; Dioxanes / chemistry; Enzyme Activation; Enzyme Stability; Molecular Conformation; Quality Control; Sensitivity and Specificity; Solvents / chemistry; Species Specificity; Structure-Activity Relationship; Sulfolobus / classification; Sulfolobus / enzymology; Temperature
TL;DR:
Results suggest cosolvents may also serve as activators in applications involving thermostable biocatalysts at sub-optimal temperatures, related to small changes in the enzyme's structure resulting in an increase in its conformational flexibility.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
6. Clean Water and Sanitation
(OpenAlex)
12. Responsible Consumption and Production
(Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018
2001 article
Protein dynamic studies move to a new time slot
Cavanagh, J., & Venters, R. A. (2001, November). NATURE STRUCTURAL BIOLOGY, Vol. 8, pp. 912–914.
MeSH headings : Amino Acid Substitution / genetics; Bacteriophage T4 / enzymology; Bacteriophage T4 / genetics; Entropy; Kinetics; Ligands; Magnetic Resonance Spectroscopy; Models, Molecular; Motion; Muramidase / chemistry; Muramidase / genetics; Muramidase / metabolism; Protein Conformation; Protein Folding; Proteins / chemistry; Proteins / genetics; Proteins / metabolism
TL;DR:
Many proteins frequently undergo structural rearrangement to complete their functions, and ligand entry and binding are often associated with some degree of localized disorder.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2001 journal article
The DNA-binding domain in the Bacillus subtilis transition-state regulator AbrB employs significant motion for promiscuous DNA recognition
JOURNAL OF MOLECULAR BIOLOGY, 305(3), 429–439.
author keywords: dynamics; AbrB; transition-state regulator; DNA-binding
MeSH headings : Amino Acid Sequence; Bacillus subtilis / chemistry; Bacterial Proteins; Binding Sites; DNA / chemistry; DNA / genetics; DNA / metabolism; DNA-Binding Proteins / chemistry; DNA-Binding Proteins / metabolism; Kinetics; Magnetic Resonance Spectroscopy; Models, Molecular; Molecular Sequence Data; Motion; Nucleic Acid Conformation; Pliability; Protein Structure, Secondary; Protein Structure, Tertiary; Static Electricity; Substrate Specificity; Thermodynamics; Transcription Factors / chemistry; Transcription Factors / metabolism
TL;DR:
Analysis of backbone relaxation parameters shows that dynamic motion of regions directly linked to DNA binding show concerted motion on the microsecond-millisecond timescale, which suggests that the DNA-binding region is capable of conformational orientations that allow it to accommodate DNA sequence variability in the cognate binding sites.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
15. Life on Land
(OpenAlex)
Source: Web Of Science
Added: August 6, 2018
2000 journal article
Novel DNA binding domain and genetic regulation model of Bacillus subtilis transition state regulator AbrB
Nature Structural Biology, 7(12), 1139–1146.
Source: NC State University Libraries
Added: August 6, 2018
1995 journal article
Functional implications of the structure of the bacterial response regulator Spo0F
Journal of Cellular Biochemistry, Suppl. 21B, 25.
Source: NC State University Libraries
Added: August 6, 2018
1993 journal article
Solution structure of the Bacillus subtilis glucose permease Iia domain and its interaction with another phosphocarrier protein Hpr. J
Journal of Cellular Biochemistry, Suppl. 17C, 271.
Source: NC State University Libraries
Added: August 6, 2018
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