Novel Ligands for a Purine Riboswitch Discovered by RNA-Ligand Docking (Q27667324)

From Wikidata

Jump to navigation Jump to search

scientific article

edit

Language	Label	Description	Also known as
English	Novel Ligands for a Purine Riboswitch Discovered by RNA-Ligand Docking	scientific article

Statements

instance of

scholarly article

0 references

title

Novel Ligands for a Purine Riboswitch Discovered by RNA-Ligand Docking (English)

0 references

main subject

drug discovery

0 references

clinical chemistry

0 references

author

Colin M Hammond

object named as

Colin M Hammond

series ordinal

4

0 references

David A Robinson

object named as

David A Robinson

series ordinal

3

0 references

Ruth Brenk

object named as

Ruth Brenk

series ordinal

7

0 references

Robert T Batey

object named as

Robert T Batey

series ordinal

6

0 references

author name string

Peter Daldrop

series ordinal

1

0 references

Francis E Reyes

series ordinal

2

0 references

David M Lilley

series ordinal

5

0 references

publication date

25 March 2011

0 references

published in

Chemistry and Biology

0 references

volume

18

0 references

issue

3

0 references

page(s)

324-35

0 references

cites work

One Scaffold, Three Binding Modes: Novel and Selective Pteridine Reductase 1 Inhibitors Derived from Fragment Hits Discovered by Virtual Screening

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

20 March 2017

Adaptive Ligand Binding by the Purine Riboswitch in the Recognition of Guanine and Adenine Analogs

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

20 March 2017

DOCK 6: combining techniques to model RNA-small molecule complexes

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

20 March 2017

A model binding site for testing scoring functions in molecular docking

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

20 March 2017

Flexible ligand docking using conformational ensembles

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

20 March 2017

REFMAC5 dictionary: organization of prior chemical knowledge and guidelines for its use

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

20 March 2017

Coot: model-building tools for molecular graphics

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

20 March 2017

The CCP4 suite: programs for protein crystallography

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

20 March 2017

PRODRG: a tool for high-throughput crystallography of protein-ligand complexes

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

20 March 2017

Virtual screening: an endless staircase?

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

20 March 2017

Docking ligands into flexible and solvated macromolecules. 4. Are popular scoring functions accurate for this class of proteins?

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

20 March 2017

Structural basis for discriminative regulation of gene expression by adenine- and guanine-sensing mRNAs

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

20 March 2017

Structure of a natural guanine-responsive riboswitch complexed with the metabolite hypoxanthine

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

20 March 2017

Adenine riboswitches and gene activation by disruption of a transcription terminator

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

20 March 2017

Novel riboswitch ligand analogs as selective inhibitors of guanine-related metabolic pathways

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

20 March 2017

Interaction of antibiotics with functional sites in 16S ribosomal RNA

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

7 April 2017

Improved ligand-protein binding affinity predictions using multiple binding modes

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

29 September 2017

A medicinal chemist's guide to molecular interactions

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

29 September 2017

A fragment-based approach to identifying ligands for riboswitches

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

29 September 2017

Determination of riboswitch structures: light at the end of the tunnel?

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

29 September 2017

Molecular recognition of RNA: challenges for modelling interactions and plasticity

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

29 September 2017

Docking screens: right for the right reasons?

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

29 September 2017

Design and antimicrobial action of purine analogues that bind Guanine riboswitches

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

29 September 2017

Roseoflavin is a natural antibacterial compound that binds to FMN riboswitches and regulates gene expression

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

29 September 2017

Docking to RNA via root-mean-square-deviation-driven energy minimization with flexible ligands and flexible targets

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

29 September 2017

Lessons learnt from assembling screening libraries for drug discovery for neglected diseases

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

29 September 2017

DrugScoreRNA--knowledge-based scoring function to predict RNA-ligand interactions

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

29 September 2017

Molecular modeling of hydration in drug design.

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

29 September 2017

Structures of RNA switches: insight into molecular recognition and tertiary structure

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

29 September 2017

Riboswitches as antibacterial drug targets

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

29 September 2017

Folding of the adenine riboswitch

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

29 September 2017

Virtual ligand screening: strategies, perspectives and limitations

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

29 September 2017

Thermodynamic and kinetic characterization of ligand binding to the purine riboswitch aptamer domain

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

29 September 2017

Probing molecular docking in a charged model binding site

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

29 September 2017

Structure-based drug design meets the ribosome

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

29 September 2017

RNA structure: the long and the short of it.

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

29 September 2017

Validation of an empirical RNA-ligand scoring function for fast flexible docking using Ribodock

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

29 September 2017

Structure-based computational database screening, in vitro assay, and NMR assessment of compounds that target TAR RNA.

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

29 September 2017

Statistical potentials and scoring functions applied to protein-ligand binding

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

29 September 2017

Strategies for the Design of Drugs Targeting RNA and RNA-Protein Complexes

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

29 September 2017

Fluorescence polarization method to characterize macrolide-ribosome interactions

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

2 June 2018

Calculation of ligand-nucleic acid binding free energies with the generalized-born model in DOCK.

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

2 June 2018

Evaluation of pKa estimation methods on 211 druglike compounds

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

27 November 2018

Evaluation of the performance of four molecular docking programs on a diverse set of protein-ligand complexes.

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

27 November 2018

The effect of ligand-based tautomer and protomer prediction on structure-based virtual screening

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

27 November 2018

Design and implementation of an ribonucleic acid (RNA) directed fragment library.

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

27 November 2018

The RFN riboswitch of Bacillus subtilis is a target for the antibiotic roseoflavin produced by Streptomyces davawensis

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

27 November 2018

Identification of novel ligands for the RNA pseudoknot that regulate -1 ribosomal frameshifting

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

27 November 2018

High quality binding modes in docking ligands to proteins.

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

27 November 2018

Modified Pyrimidines Specifically Bind the Purine Riboswitch

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

27 November 2018

Docking of aminoglycosides to hydrated and flexible RNA.

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

27 November 2018

Validation of automated docking programs for docking and database screening against RNA drug targets

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

27 November 2018

Virtual screening using protein-ligand docking: avoiding artificial enrichment.

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

27 November 2018

Ligand-based structural hypotheses for virtual screening

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

27 November 2018

MAB, a generally applicable molecular force field for structure modelling in medicinal chemistry.

1 reference

stated in

PubMed Central

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3119931

retrieved

27 November 2018

Targeting RNA with small molecules

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/21439477

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Comparison of nine programs predicting pK(a) values of pharmaceutical substances

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/21439477

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Accuracy assessment of protein-based docking programs against RNA targets

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/21439477

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Processing of X-ray diffraction data collected in oscillation mode

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/21439477

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

DOI

10.1016/J.CHEMBIOL.2010.12.020

1 reference

stated in

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

1011207

OpenCitations bibliographic resource ID

1011207

1 reference

stated in

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

1011207

PMC publication ID

3119931

1 reference

stated in

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

1011207

PubMed publication ID

21439477

1 reference

stated in

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

1011207

ResearchGate publication ID

50865971

0 references

 

Sitelinks

Wikipedia(0 entries)

edit

Wikibooks(0 entries)

edit

Wikinews(0 entries)

edit

Wikiquote(0 entries)

edit

Wikisource(0 entries)

edit

Wikiversity(0 entries)

edit

Wikivoyage(0 entries)

edit

Wiktionary(0 entries)

edit

Multilingual sites(0 entries)

edit

Retrieved from "https://www.wikidata.org/w/index.php?title=Q27667324&oldid=1606641973"