Identifying the 45 kDa protein binding site
Interdomain interactions of the transactive response DNA binding protein 43 kDa (TDP-43)
... TDP-43 protein with greater ...the binding interface within the RNA-binding domain would be ...upon binding and activation of crosslinking, the C-terminal domain would be chemically bound at ...
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Identification of a TolA Protein Binding Site for Bacterial Toxins
... membrane protein F (OmpF) and OmpC, exist to facilitate passive ...Various protein-systems have evolved to address the need for the OM’s energy demand for active ...Such protein systems occupy the ...
36
Protein Binding Site Similarities as Driver for Drug Repositioning
... target binding is inherent to drug mode of action and thus rooted in protein evolution ...at protein complexes – achieving their functional diversity by combining functional modules [31] – modularity ...
151
Modification of the loops in the ligand-binding site turns avidin into a steroid-binding protein
... analysis, binding properties and selection experiments, the con- struct that expressed both fusion and free Avd showed an enhanced assembly of functional, tetrameric Avd on the phage compared to the Avd-pIII ...
12
An internal ribosome entry site element directs the synthesis of the 80 kDa isoforms of protein 4.1R
... revealed great complexity in the 5' region of the 4.1R gene and have shown evidence of coupling between transcrip- tion and alternative splicing that directly affects alterna- tive splicing of exon 2', thus regulating ...
12
Evolving Transcription Factor Binding Site Models From Protein Binding Microarray Data
... Foxa2 protein is selected and studied in ...Myb1 protein, Foxa2 binds to DNA in monomer ...core binding length spans across 8 ...monomeric binding nature of ...
11
Characterization of the relationship between the chaperone and lipid-binding functions of the 70-kDa heat-shock protein, HspA1A
... this protein does not contain any known lipid-binding domains or other PM translocation ...the protein from translocating to the PM while still maintaining its chaperone ...
28
Characterization of the Relationship between the Chaperone and Lipid-Binding Functions of the 70-Kda Heat-Shock Protein, HspA1A
... of binding to phosphatidylserine (PS) on the secondary structure and chaperone functions of ...that binding to PS had minimal alterations on HspA1A’s secondary ...PS- binding showed subtle but ...
11
Analysis of the receptor-binding site of murine coronavirus spike protein.
... S protein or S1N(330) was unable to bind to the receptor ...receptor-binding site of rhinoviruses is thought to form a so-called canyon, a small concave region too small for im- munoglobulin ...
5
A Genetic Approach to Mapping the p53 Binding Site in the MDM2 Protein
... (A) Five different plasmids were translated and [35S] -labeled in vitro: luciferase as a negative control, full length and 1-115 of human wild-type Mdm2 as positive controls, and the two[r] ...
12
InSite: a computational method for identifying protein protein interaction binding sites on a proteome wide scale
... on protein A binds to protein ...of binding sites for the esti- mated set of affinity ...each binding prediction by 'disallowing' the A - B binding at the predicted motif M, re-esti- ...
18
SITEHOUND-web: a server for ligand binding site identification in protein structures
... of binding sites for molecules that interact mainly through van der Waals contacts; and a phosphate probe which is used to identify sites that bind to phosphorylated ...elongated binding sites, like those ...
5
Automatic generation of bioinformatics tools for protein ligand binding site prediction
... Supplementary Note S2 Sample SPARQL queries in UTProt Galaxy pipeline. Here, we describe the SPARQL queries in the pipeline. The query of “get a ligand binding proteins from multiple HETATM code” describes a next ...
24
Research Article Cloud Computing for Protein-Ligand Binding Site Comparison
... of protein-ligand binding sites and their interactions with ligands is important in structure-based drug design and in understanding ligand cross reactivity and ...ligand binding site ...
8
MONKEY: identifying conserved transcription factor binding sites in multiple alignments using a binding site specific evolutionary model
... In addition to developing new methods, there are several hypotheses regarding the comparative annotation of TFBSs that we are interested in testing. It has been noted that the effectiveness of such analyses will depend ...
15
Sequence and structural features of binding site residues in protein-protein complexes: comparison with protein-nucleic acid complexes
... in protein-protein complexes, indicating the importance of cation-π, aromatic and electrostatic ...between protein-protein and protein-RNA complexes showed that the residues, Asp, Cys, ...
6
Identification of Glyceraldehyde-3-phosphate dehydrogenase (GAPDH) as a binding protein for a 68-kDa Bacillus thuringiensis parasporal protein cytotoxic against leukaemic cells
... target protein of the saframycin antiproliferative agents for leukaemia and tumour-derived cells, where it forms a ternary complex with saframycin-related compounds and DNA, inducing a toxic response in ...
11
Mapping an antibody-binding site and a T-cell-stimulating site on the 1A protein of respiratory syncytial virus.
... were immunized once with 1A(45-60), and the draining lymph node cells were tested for ability to proliferate in response to in vitro restimulation with the nested set of peptides describ[r] ...
9
Requirements for stress granule recruitment of fused in sarcoma (FUS) and TAR DNA-binding protein of 43 kDa (TDP-43)
... 25 kDa C-terminal fragment (CTF) of TDP- 43 is not recruited to SG – We speculated that the differences in SG marker co-labeling of TDP-43 inclusions in different tissues may be due to the presence of different ...
33
Structural evidence that colicin a protein binds to a novel binding site of TolA protein in Escherichia coli periplasm
... Results: The N terminus of colicin A interacts with the C terminus of TolA through  -strand addition. Conclusion: Colicin A interacts with TolA at a novel binding site to promote cell killing. ...
11