Review




Structured Review

Databank Inc three-dimensional structures
Three Dimensional Structures, supplied by Databank Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/three-dimensional+structures/3d+structures/pm39987520-85-0-8
Average 90 stars, based on 1 article reviews
three-dimensional structures - by Bioz Stars, 2026-09
90/100 stars

Images

Related Articles

other:

Article Title: From lignocellulose to plastics: Knowledge transfer on the degradation approaches by fungi.
Article Snippet: In this review, we argue that there is much to be learned by transferring knowledge from research on lignocellulose degradation to that on plastic.. Plastic waste accumulates in the environment to hazardous levels, because it is inherently recalcitrant to biological degradation.. Plants evolved lignocellulose to be resistant to degradation, but with time, fungi became capable of utilising it for their nutrition.

Article Title: DEDuCT 2.0: An updated knowledgebase and an exploration of the current regulations and guidelines from the perspective of endocrine disrupting chemicals.
Article Snippet: This is a PDF file of an article that has undergone enhancements after acceptance, such as the addition of a cover page and metadata, and formatting for readability, but it is not yet the definitive version of record.. This version will undergo additional copyediting, typesetting and review before it is published in its final form, but we are providing this version to give early visibility of the article.. Please note that, during the production process, errors may be discovered which could affect the content, and all legal disclaimers that apply to the journal pertain.

Article Title: Integrating molecular docking and molecular dynamics simulations to evaluate active compounds of Hibiscus schizopetalus for obesity
Article Snippet: The molecular structure can be obtained by downloading the 3-D structure from Databank (https://www.rcsb.org) [25] and converting it into a PDB file using UCSF Chimera (https://www.cgl.ucsf.edu/chimera/) [26].

Article Title: Tea polyphenols as multi-target therapeutics for Alzheimer's disease: An in silico study.
Article Snippet: Accepted Manuscript Tea polyphenols as multi-target therapeutics for Alzheimer’s disease: an in silico study Muhammed Khairujjaman Mazumder, Shuvasish Choudhury PII: S0306-9877(18)31339-2 DOI: https://doi.org/10.1016/j.mehy.2019.02.035 Reference: YMEHY 9144 To appear in: Medical Hypotheses Received Date: 26 December 2018 Revised Date: 1 February 2019 Accepted Date: 13 February 2019 Please cite this article as: M.K.. Mazumder, S. Choudhury, Tea polyphenols as multi-target therapeutics for Alzheimer’s disease: an in silico study, Medical Hypotheses (2019), doi: https://doi.org/10.1016/j.mehy.. 2019.02.035 This is a PDF file of an unedited manuscript that has been accepted for publication.

Article Title: The novel CFTR haplotype E583G/F508del in CFTR-related disorder
Article Snippet: Effects of the p.(Glu583Gly) substitution in the tertiary structure have been assessed on the high definition 3D-structure available in the Protein DataBank (5AUK).

Article Title: Prediction of Protein-Protein Interactions Using Vision Transformer and Language Model
Article Snippet: The knowledge of protein-protein interaction (PPI) helps us to understand proteins’ functions, the causes and growth of several diseases, and can aid in designing new drugs.. The majority of existing PPI research has relied mainly on sequence-based approaches.. With the availability of multi-omics datasets (sequence, 3D structure) and advancements in deep learning techniques, it is feasible to develop a deep multi-modal framework that fuses the features learned from different sources of information to predict PPI.

Article Title: Assessment of the Cytotoxicity Mechanism of Diazinon on HFFF2 Cells: A Bioinformatic and Experimental Study.
Article Snippet: Pesticide exposure can cause many skin diseases such as hypopigmentation and contact dermatitis, but the underlying mechanisms remain unclear.. Furthermore, Organophosphate pesticides (OPs) including Diazinon (DZN) can affect cellular pathways like ATPase, leading to mitochondrial energy deficit and even apoptosis in the cell's functions.. Following cell exposure to the OP pesticide DZN through treatment, we evaluated alteration in gene expression and DNA damage.

X-ray Diffraction:

Article Title: Convergence and equilibrium in molecular dynamics simulations
Article Snippet: The analysis of Molecular Dynamics (MD) simulations is most often based on the implicit assumption that the system was in thermodynamic equilibrium. .. For example, in biomolecular simulations, the starting point is usually an experimentally determined 3D structure, retrieved from the Protein DataBank that is not in equilibrium, since its determination required specific preparations (for x-ray diffraction, the most usual experimental technique used for structure determination, the biomolecule is part of a crystal from where electron density maps are obtained; these are strong non-equilibrium conditions, if one wants to simulate a physiological–non-crystal–system). ..



Similar Products

90
VANGL2 LTD three-dimensional structure of
Three Dimensional Structure Of, supplied by VANGL2 LTD, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/three-dimensional+structures/three+dimensional+structure+of/pmc11067467__pnas__2310283121__sapp-120-25-25
Average 90 stars, based on 1 article reviews
three-dimensional structure of - by Bioz Stars, 2026-09
90/100 stars
  Buy from Supplier

90
Chembio Diagnostics 3-dimensional (3d) structures of three coumarin derivatives (c30, c30-me, and smsm64)
Coumarin <t>derivatives</t> can selectively bind to RNA G 1 × 0 bulges: ( A ) RNA structures of the 1 × 0 RNA bulges used for in vitro binding profiling using the FP assay. N = G , A , U , or C (RNA1-4). ( B ) Heatmap profile of the ΔmP = (FP RNA-ligand – FP ligand ) × 1000 for RNA binders in the presence of [RNA] = 5 or 1 μM (red = high polarization, blue = low polarization). ( C ) ΔmP of RNA-ligand complex for RNA ligands at 5 μM. Each data point represents a measurement of a ligand in the 69-compound collection. **** indicates P < .0001. ( D ) Dose-response curves for compounds (SMSM6, <t>C30)</t> selectively binding to the bulged G RNA (RNA1) compared to an 11-nucleotide GA-rich sequence that would form a double loop-like RNA structure measured by the FP assay.
3 Dimensional (3d) Structures Of Three Coumarin Derivatives (C30, C30 Me, And Smsm64), supplied by Chembio Diagnostics, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/three-dimensional+structures/3+dimensional++3d++structures+of+three+coumarin+derivatives++c30++c30+me++and+smsm64+/pmc12188297-55-5-14
Average 90 stars, based on 1 article reviews
3-dimensional (3d) structures of three coumarin derivatives (c30, c30-me, and smsm64) - by Bioz Stars, 2026-09
90/100 stars
  Buy from Supplier

90
NovoPro Biosciences Inc pdb-formatted file of the three-dimensional (3-d) structure of cordycepin
Coumarin <t>derivatives</t> can selectively bind to RNA G 1 × 0 bulges: ( A ) RNA structures of the 1 × 0 RNA bulges used for in vitro binding profiling using the FP assay. N = G , A , U , or C (RNA1-4). ( B ) Heatmap profile of the ΔmP = (FP RNA-ligand – FP ligand ) × 1000 for RNA binders in the presence of [RNA] = 5 or 1 μM (red = high polarization, blue = low polarization). ( C ) ΔmP of RNA-ligand complex for RNA ligands at 5 μM. Each data point represents a measurement of a ligand in the 69-compound collection. **** indicates P < .0001. ( D ) Dose-response curves for compounds (SMSM6, <t>C30)</t> selectively binding to the bulged G RNA (RNA1) compared to an 11-nucleotide GA-rich sequence that would form a double loop-like RNA structure measured by the FP assay.
Pdb Formatted File Of The Three Dimensional (3 D) Structure Of Cordycepin, supplied by NovoPro Biosciences Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/three-dimensional+structures/pdb+formatted+file+of+the+three+dimensional++3+d++structure+of+cordycepin/10__1016_slash_j__lddd__2025__100044-71-9-32
Average 90 stars, based on 1 article reviews
pdb-formatted file of the three-dimensional (3-d) structure of cordycepin - by Bioz Stars, 2026-09
90/100 stars
  Buy from Supplier

90
Thermo Fisher three-dimensional structures
Coumarin <t>derivatives</t> can selectively bind to RNA G 1 × 0 bulges: ( A ) RNA structures of the 1 × 0 RNA bulges used for in vitro binding profiling using the FP assay. N = G , A , U , or C (RNA1-4). ( B ) Heatmap profile of the ΔmP = (FP RNA-ligand – FP ligand ) × 1000 for RNA binders in the presence of [RNA] = 5 or 1 μM (red = high polarization, blue = low polarization). ( C ) ΔmP of RNA-ligand complex for RNA ligands at 5 μM. Each data point represents a measurement of a ligand in the 69-compound collection. **** indicates P < .0001. ( D ) Dose-response curves for compounds (SMSM6, <t>C30)</t> selectively binding to the bulged G RNA (RNA1) compared to an 11-nucleotide GA-rich sequence that would form a double loop-like RNA structure measured by the FP assay.
Three Dimensional Structures, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/three-dimensional+structures/pm40419033-243-4-13
Average 90 stars, based on 1 article reviews
three-dimensional structures - by Bioz Stars, 2026-09
90/100 stars
  Buy from Supplier

90
Databank Inc three-dimensional structures
Coumarin <t>derivatives</t> can selectively bind to RNA G 1 × 0 bulges: ( A ) RNA structures of the 1 × 0 RNA bulges used for in vitro binding profiling using the FP assay. N = G , A , U , or C (RNA1-4). ( B ) Heatmap profile of the ΔmP = (FP RNA-ligand – FP ligand ) × 1000 for RNA binders in the presence of [RNA] = 5 or 1 μM (red = high polarization, blue = low polarization). ( C ) ΔmP of RNA-ligand complex for RNA ligands at 5 μM. Each data point represents a measurement of a ligand in the 69-compound collection. **** indicates P < .0001. ( D ) Dose-response curves for compounds (SMSM6, <t>C30)</t> selectively binding to the bulged G RNA (RNA1) compared to an 11-nucleotide GA-rich sequence that would form a double loop-like RNA structure measured by the FP assay.
Three Dimensional Structures, supplied by Databank Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/three-dimensional+structures/3d+structures/pm39987520-85-0-8
Average 90 stars, based on 1 article reviews
three-dimensional structures - by Bioz Stars, 2026-09
90/100 stars
  Buy from Supplier

90
Chembridge three-dimensional compound structure library
Coumarin <t>derivatives</t> can selectively bind to RNA G 1 × 0 bulges: ( A ) RNA structures of the 1 × 0 RNA bulges used for in vitro binding profiling using the FP assay. N = G , A , U , or C (RNA1-4). ( B ) Heatmap profile of the ΔmP = (FP RNA-ligand – FP ligand ) × 1000 for RNA binders in the presence of [RNA] = 5 or 1 μM (red = high polarization, blue = low polarization). ( C ) ΔmP of RNA-ligand complex for RNA ligands at 5 μM. Each data point represents a measurement of a ligand in the 69-compound collection. **** indicates P < .0001. ( D ) Dose-response curves for compounds (SMSM6, <t>C30)</t> selectively binding to the bulged G RNA (RNA1) compared to an 11-nucleotide GA-rich sequence that would form a double loop-like RNA structure measured by the FP assay.
Three Dimensional Compound Structure Library, supplied by Chembridge, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/three-dimensional+structures/3d+structure+library/pm40333783-2-31-34
Average 90 stars, based on 1 article reviews
three-dimensional compound structure library - by Bioz Stars, 2026-09
90/100 stars
  Buy from Supplier

90
COMSOL Inc three-dimensional structural model of the objective lens assembly
Coumarin <t>derivatives</t> can selectively bind to RNA G 1 × 0 bulges: ( A ) RNA structures of the 1 × 0 RNA bulges used for in vitro binding profiling using the FP assay. N = G , A , U , or C (RNA1-4). ( B ) Heatmap profile of the ΔmP = (FP RNA-ligand – FP ligand ) × 1000 for RNA binders in the presence of [RNA] = 5 or 1 μM (red = high polarization, blue = low polarization). ( C ) ΔmP of RNA-ligand complex for RNA ligands at 5 μM. Each data point represents a measurement of a ligand in the 69-compound collection. **** indicates P < .0001. ( D ) Dose-response curves for compounds (SMSM6, <t>C30)</t> selectively binding to the bulged G RNA (RNA1) compared to an 11-nucleotide GA-rich sequence that would form a double loop-like RNA structure measured by the FP assay.
Three Dimensional Structural Model Of The Objective Lens Assembly, supplied by COMSOL Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/three-dimensional+structures/three+dimensional+structural+model+of+the+objective+lens+assembly/10__1016_slash_j__vacuum__2025__114384-147-8-13
Average 90 stars, based on 1 article reviews
three-dimensional structural model of the objective lens assembly - by Bioz Stars, 2026-09
90/100 stars
  Buy from Supplier

90
National Research Council Canada three-dimensional structure analysis
Coumarin <t>derivatives</t> can selectively bind to RNA G 1 × 0 bulges: ( A ) RNA structures of the 1 × 0 RNA bulges used for in vitro binding profiling using the FP assay. N = G , A , U , or C (RNA1-4). ( B ) Heatmap profile of the ΔmP = (FP RNA-ligand – FP ligand ) × 1000 for RNA binders in the presence of [RNA] = 5 or 1 μM (red = high polarization, blue = low polarization). ( C ) ΔmP of RNA-ligand complex for RNA ligands at 5 μM. Each data point represents a measurement of a ligand in the 69-compound collection. **** indicates P < .0001. ( D ) Dose-response curves for compounds (SMSM6, <t>C30)</t> selectively binding to the bulged G RNA (RNA1) compared to an 11-nucleotide GA-rich sequence that would form a double loop-like RNA structure measured by the FP assay.
Three Dimensional Structure Analysis, supplied by National Research Council Canada, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/three-dimensional+structures/pm40187454-349-32-15
Average 90 stars, based on 1 article reviews
three-dimensional structure analysis - by Bioz Stars, 2026-09
90/100 stars
  Buy from Supplier

90
MathWorks Inc stl data for the three-dimensional gyroid structures
Coumarin <t>derivatives</t> can selectively bind to RNA G 1 × 0 bulges: ( A ) RNA structures of the 1 × 0 RNA bulges used for in vitro binding profiling using the FP assay. N = G , A , U , or C (RNA1-4). ( B ) Heatmap profile of the ΔmP = (FP RNA-ligand – FP ligand ) × 1000 for RNA binders in the presence of [RNA] = 5 or 1 μM (red = high polarization, blue = low polarization). ( C ) ΔmP of RNA-ligand complex for RNA ligands at 5 μM. Each data point represents a measurement of a ligand in the 69-compound collection. **** indicates P < .0001. ( D ) Dose-response curves for compounds (SMSM6, <t>C30)</t> selectively binding to the bulged G RNA (RNA1) compared to an 11-nucleotide GA-rich sequence that would form a double loop-like RNA structure measured by the FP assay.
Stl Data For The Three Dimensional Gyroid Structures, supplied by MathWorks Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/three-dimensional+structures/10__1007_slash_s12540___025___01936___5-88-60-65
Average 90 stars, based on 1 article reviews
stl data for the three-dimensional gyroid structures - by Bioz Stars, 2026-09
90/100 stars
  Buy from Supplier

90
Accelrys three-dimensional structures of both the wild-type and mutant pigt
Prediction of protein stability at the alteration site through interaction formation. ( a ) Visualization performed <t>using</t> <t>BIOVIA</t> Discovery Studio Visualizer (Version 21.1.0.20298). ( b ) Conservation of amino acids around position 86 in <t>PIGT</t> across different species. An asterisk ( * ) indicates p.86 of the PIGT protein in each species. ( c , d ) Comparison of intramolecular bonds at the alteration site in wild-type (wt) and mutant (mt) proteins, computed and visualized via DDMut.
Three Dimensional Structures Of Both The Wild Type And Mutant Pigt, supplied by Accelrys, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/three-dimensional+structures/three+dimensional+structures+of+both+the+wild+type+and+mutant+pigt/pmc11943126-186-8-15
Average 90 stars, based on 1 article reviews
three-dimensional structures of both the wild-type and mutant pigt - by Bioz Stars, 2026-09
90/100 stars
  Buy from Supplier

Image Search Results


Coumarin derivatives can selectively bind to RNA G 1 × 0 bulges: ( A ) RNA structures of the 1 × 0 RNA bulges used for in vitro binding profiling using the FP assay. N = G , A , U , or C (RNA1-4). ( B ) Heatmap profile of the ΔmP = (FP RNA-ligand – FP ligand ) × 1000 for RNA binders in the presence of [RNA] = 5 or 1 μM (red = high polarization, blue = low polarization). ( C ) ΔmP of RNA-ligand complex for RNA ligands at 5 μM. Each data point represents a measurement of a ligand in the 69-compound collection. **** indicates P < .0001. ( D ) Dose-response curves for compounds (SMSM6, C30) selectively binding to the bulged G RNA (RNA1) compared to an 11-nucleotide GA-rich sequence that would form a double loop-like RNA structure measured by the FP assay.

Journal: Nucleic Acids Research

Article Title: Mechanistic studies of small molecule ligands selective to RNA single G bulges

doi: 10.1093/nar/gkaf559

Figure Lengend Snippet: Coumarin derivatives can selectively bind to RNA G 1 × 0 bulges: ( A ) RNA structures of the 1 × 0 RNA bulges used for in vitro binding profiling using the FP assay. N = G , A , U , or C (RNA1-4). ( B ) Heatmap profile of the ΔmP = (FP RNA-ligand – FP ligand ) × 1000 for RNA binders in the presence of [RNA] = 5 or 1 μM (red = high polarization, blue = low polarization). ( C ) ΔmP of RNA-ligand complex for RNA ligands at 5 μM. Each data point represents a measurement of a ligand in the 69-compound collection. **** indicates P < .0001. ( D ) Dose-response curves for compounds (SMSM6, C30) selectively binding to the bulged G RNA (RNA1) compared to an 11-nucleotide GA-rich sequence that would form a double loop-like RNA structure measured by the FP assay.

Article Snippet: 3-Dimensional (3D) structures of three coumarin derivatives (C30, C30-Me, and SMSM64) were prepared using ChemBio Tool.

Techniques: In Vitro, Binding Assay, FP Assay, Sequencing

Protonation state of the ligands contributes to the RNA binding. ( A ) Equilibria for the protonation reactions of four coumarin derivatives. ( B ) Protonation energy (relative to C29) was calculated using DFT with B3LYP 6–31G(d) basis set. ( C ) Observed binding affinity of the four compounds.

Journal: Nucleic Acids Research

Article Title: Mechanistic studies of small molecule ligands selective to RNA single G bulges

doi: 10.1093/nar/gkaf559

Figure Lengend Snippet: Protonation state of the ligands contributes to the RNA binding. ( A ) Equilibria for the protonation reactions of four coumarin derivatives. ( B ) Protonation energy (relative to C29) was calculated using DFT with B3LYP 6–31G(d) basis set. ( C ) Observed binding affinity of the four compounds.

Article Snippet: 3-Dimensional (3D) structures of three coumarin derivatives (C30, C30-Me, and SMSM64) were prepared using ChemBio Tool.

Techniques: RNA Binding Assay, Binding Assay

Prediction of protein stability at the alteration site through interaction formation. ( a ) Visualization performed using BIOVIA Discovery Studio Visualizer (Version 21.1.0.20298). ( b ) Conservation of amino acids around position 86 in PIGT across different species. An asterisk ( * ) indicates p.86 of the PIGT protein in each species. ( c , d ) Comparison of intramolecular bonds at the alteration site in wild-type (wt) and mutant (mt) proteins, computed and visualized via DDMut.

Journal: International Journal of Molecular Sciences

Article Title: A Novel Homozygous Missense Variant of PIGT Related to Multiple Congenital Anomalies-Hypotonia Seizures Syndrome 3 with Elevated of Serum ALP Level in a Thai Newborn Patient

doi: 10.3390/ijms26062790

Figure Lengend Snippet: Prediction of protein stability at the alteration site through interaction formation. ( a ) Visualization performed using BIOVIA Discovery Studio Visualizer (Version 21.1.0.20298). ( b ) Conservation of amino acids around position 86 in PIGT across different species. An asterisk ( * ) indicates p.86 of the PIGT protein in each species. ( c , d ) Comparison of intramolecular bonds at the alteration site in wild-type (wt) and mutant (mt) proteins, computed and visualized via DDMut.

Article Snippet: The three-dimensional structures of both the wild-type and mutant PIGT (PDB: 7wld) were visualized using BIOVIA software [ ].

Techniques: Comparison, Mutagenesis