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Protein complex prediction
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The melting points of the complexes were >350oC, indicating high thermal stability. Cu-Zn-containing complex showed the least binding energy against the three proteins. The bioactivity scores of the complexes were between -0.50 and 0.0. Against A549 Cu-Zn, Co-Zn and Fe-Zn containing complexes showed potential activity. Against MCF-7, Fe-Cu containing complex had IC50 of 53.5 whereas Co-Zn containing complex was active against HepG2. Three complexes were active against S. aureus in the tested range.
18p
dianmotminh02
03-05-2024
2
1
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The systemic inflammatory response resulting from the complex interactions between cancer and the host plays an important role in cancer development. Recently, the lymphocyte-C-reactive protein ratio (LCR), which is a haematological and biochemical marker that reflects the systemic inflammatory response and nutritional status, has been reported to be associated with poor survival.
14p
visusanwojcicki
28-06-2022
11
2
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Splicing is a genetic process that has important implications in several diseases including cancer. Deciphering the complex rules of splicing regulation is crucial to understand and treat splicing-related diseases.
11p
visilicon2711
20-08-2021
5
1
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RNA-protein 3D complex structure prediction is still challenging. Recently, a template-based approach PRIME is proposed in our team to build RNA-protein 3D complex structure models with a higher success rate than computational docking software.
10p
visilicon2711
20-08-2021
8
1
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All eukaryotes share a conserved network of processes regulated by the proteasome and fundamental to growth, development, or perception of the environment, leading to complex but often predictable responses to stress.
12p
viansan2711
30-07-2021
13
1
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The draft genome assemblies produced by new sequencing technologies present important challenges for automatic gene prediction pipelines, leading to less accurate gene models. New benchmark methods are needed to evaluate the accuracy of gene prediction methods in the face of incomplete genome assemblies, low genome coverage and quality, complex gene structures, or a lack of suitable sequences for evidence-based annotations.
20p
vijeeni2711
24-07-2021
13
0
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ABC1K (Activity of BC1 complex Kinase) is an evolutionarily primitive atypical kinase family widely distributed among prokaryotes and eukaryotes. The ABC1K protein kinases in Arabidopsis are predicted to localize either to the mitochondria or chloroplasts, in which plastid-located ABC1K proteins are involved in the response against photo-oxidative stress and cadmium-induced oxidative stress.
13p
vijichea2711
28-05-2021
9
1
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Glycosylphosphatidylinositol (GPI) addition is one of the several post-translational modifications to proteins that increase their affinity for membranes. In eukaryotes, the GPI transamidase complex (GPI-T) catalyzes the attachment of pre-assembled GPI anchors to GPI-anchored proteins (GAPs) through a transamidation reaction.
14p
vijichea2711
28-05-2021
4
1
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Many important cellular processes are carried out by protein complexes. To provide physical pictures of interacting proteins, many computational protein-protein prediction methods have been developed in the past.
17p
viwyoming2711
16-12-2020
8
0
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Adenosine-5′-triphosphate (ATP) is one of multifunctional nucleotides and plays an important role in cell biology as a coenzyme interacting with proteins. Revealing the binding sites between protein and ATP is significantly important to understand the functionality of the proteins and the mechanisms of protein-ATP complex.
11p
viwyoming2711
16-12-2020
9
0
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Protein-protein docking, which aims to predict the structure of a protein-protein complex from its unbound components, remains an unresolved challenge in structural bioinformatics. An important step is the ranking of docked poses using a scoring function, for which many methods have been developed.
15p
viwyoming2711
16-12-2020
7
0
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Protein sequence similarities to any types of non-globular segments (coiled coils, low complexity regions, transmembrane regions, long loops, etc. where either positional sequence conservation is the result of a very simple, physically induced pattern or rather integral sequence properties are critical) are pertinent sources for mistaken homologies.
29p
vikentucky2711
26-11-2020
11
0
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Since proteins function by interacting with other molecules, analysis of protein-protein interactions is essential for comprehending biological processes. Whereas understanding of atomic interactions within a complex is especially useful for drug design, limitations of experimental techniques have restricted their practical use. Despite progress in docking predictions, there is still room for improvement.
16p
vikentucky2711
26-11-2020
9
0
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The identification of protein-protein interaction sites is a computationally challenging task and important for understanding the biology of protein complexes. There is a rich literature in this field. A broad class of approaches assign to each candidate residue a real-valued score that measures how likely it is that the residue belongs to the interface.
14p
vikentucky2711
26-11-2020
9
1
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Various methods have been developed to computationally predict hotspot residues at novel proteinprotein interfaces. However, there are various challenges in obtaining accurate prediction. We have developed a novel method which uses different aspects of protein structure and sequence space at residue level to highlight interface residues crucial for the protein-protein complex formation.
10p
vikentucky2711
26-11-2020
12
1
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RNA-protein complexes play an essential role in many biological processes. To explore potential functions of RNA-protein complexes, it’s important to identify RNA-binding residues in proteins.
10p
vikentucky2711
26-11-2020
10
1
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Our knowledge of global protein-protein interaction (PPI) networks in complex organisms such as humans is hindered by technical limitations of current methods. Results: On the basis of short co-occurring polypeptide regions, we developed a tool called MP-PIPE capable of predicting a global human PPI network within 3 months.
22p
vikentucky2711
26-11-2020
11
1
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Two component systems (TCS) are signalling complexes manifested by a histidine kinase (receptor) and a response regulator (effector). They are the most abundant signalling pathways in prokaryotes and control a wide range of biological processes.
9p
vikentucky2711
24-11-2020
8
1
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Proteins interact with a variety of other molecules such as nucleic acids, small molecules and other proteins inside the cell. Structure-determination of protein-protein complexes is challenging due to several reasons such as the large molecular weights of these macromolecular complexes, their dynamic nature, difficulty in purification and sample preparation.
6p
vikentucky2711
24-11-2020
15
1
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Protein complexes carry out nearly all signaling and functional processes within cells. The study of protein complexes is an effective strategy to analyze cellular functions and biological processes. With the increasing availability of proteomics data, various computational methods have recently been developed to predict protein complexes.
14p
vioklahoma2711
19-11-2020
7
2
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