scholarly journals A new cross-linking strategy: protein interaction reporter (PIR) technology for protein–protein interaction studies

2010 ◽  
Vol 6 (6) ◽  
pp. 939 ◽  
Author(s):  
Xiaoting Tang ◽  
James E. Bruce
Keyword(s):  
Protein Interaction ◽  
Cross Linking ◽  
Protein Protein Interaction ◽  
Interaction Studies

scholarly journals Definition of a minimal munc18c domain that interacts with syntaxin 4

2000 ◽  
Vol 350 (3) ◽  
pp. 741-746 ◽  
Author(s):  
Julian GRUSOVIN ◽  
Violet STOICHEVSKA ◽  
Keith H. GOUGH ◽  
Katrina NUNAN ◽  
Colin W. WARD ◽  
...  
Keyword(s):  
Protein Interaction ◽  
Full Length ◽  
Yeast Two Hybrid ◽  
Protein Protein Interaction ◽  
Interaction Studies ◽  
Syntaxin 4 ◽  
Definition Of ◽  
Two Hybrid

munc18c is a critical protein involved in trafficking events associated with syntaxin 4 and which also mediates inhibitory effects on vesicle docking and/or fusion. To investigate the domains of munc18c responsible for its interaction with syntaxin 4, fragments of munc18c were generated and their interaction with syntaxin 4 examined in vivo by the yeast two-hybrid assay. In vitro protein–protein interaction studies were then used to confirm that the interaction between the proteins was direct. Full-length munc18c1–592, munc18c1–139 and munc18c1–225, but not munc18c226–592, munc18c1–100, munc18c43–139 or munc18c66–139, interacted with the cytoplasmic portion of syntaxin 4, Stx42–273, as assessed by yeast two-hybrid assay of growth on nutritionally deficient media and by β-galactosidase reporter induction. The N-terminal predicted helix-a-helix-b-helix-c region of syntaxin 4, Stx429–157, failed to interact with full-length munc18c1–592, indicating that a larger portion of syntaxin 4 is necessary for the interaction. The yeast two-hybrid results were confirmed by protein–protein interaction studies between Stx42–273 and glutathione S-transferase fusion proteins of munc18c. Full-length munc18c1–592, munc18c1–139 and munc18c1–225 interacted with Stx42–273 whereas munc18c1–100 did not, consistent with the yeast two-hybrid data. These data thus identify a region of munc18c between residues 1 and 139 as a minimal domain for its interaction with syntaxin 4.

Furan warheads for covalent trapping of weak protein-protein interactions: cross-linking of thymosin β4 to actin

2021 ◽  
Author(s):  
Laia Miret Casals ◽  
Willem Vannecke ◽  
Kurt Hoogewijs ◽  
Gianluca Arauz ◽  
Marina Gay ◽  
...  
Keyword(s):  
Protein Interaction ◽  
Protein Interactions ◽  
3D Structure ◽  
Cross Linking ◽  
Thymosin Β4 ◽  
Protein Protein Interactions ◽  
Site Specific ◽  
Protein Protein Interaction ◽  
Covalent Trapping

We describe furan as a triggerable ‘warhead’ for site-specific cross-linking using the actin and thymosin β4 (Tβ4)-complex as model of a weak and dynamic protein-protein interaction with known 3D structure...

scholarly journals Protein Cross-Linking Capillary Electrophoresis for Protein–Protein Interaction Analysis

2016 ◽  
Vol 88 (16) ◽  
pp. 8272-8278 ◽  
Author(s):  
Claire M. Ouimet ◽  
Hao Shao ◽  
Jennifer N. Rauch ◽  
Mohamed Dawod ◽  
Bryce Nordhues ◽  
...  
Keyword(s):  
Capillary Electrophoresis ◽  
Protein Interaction ◽  
Interaction Analysis ◽  
Cross Linking ◽  
Protein Protein Interaction ◽  
Protein Cross Linking

Potential of mean force for protein-protein interaction studies

2002 ◽  
Vol 46 (2) ◽  
pp. 190-196 ◽  
Author(s):  
Lin Jiang ◽  
Ying Gao ◽  
Fenglou Mao ◽  
Zhijie Liu ◽  
Luhua Lai
Keyword(s):  
Protein Interaction ◽  
Potential Of Mean Force ◽  
Protein Protein Interaction ◽  
Interaction Studies

scholarly journals VimA is part of the maturation pathway for the major gingipains of Porphyromonas gingivalis W83

Microbiology ◽  
2006 ◽  
Vol 152 (11) ◽  
pp. 3383-3389 ◽  
Author(s):  
E. Vanterpool ◽  
F. Roy ◽  
W. Zhan ◽  
S. M. Sheets ◽  
L. Sangberg ◽  
...  
Keyword(s):  
Gene Product ◽  
Porphyromonas Gingivalis ◽  
Protein Interaction ◽  
Protein Protein Interaction ◽  
Interaction Studies ◽  
Defective Mutant ◽  
Protease Activation ◽  
Porphyromonas Gingivalis W83

The authors have shown previously that the vimA gene, which is part of the bcp-recA-vimA operon, plays an important role in protease activation in Porphyromonas gingivalis. The gingipain RgpB proenzyme is secreted in the vimA-defective mutant P. gingivalis FLL92. An important question that is raised is whether the vimA gene product could directly interact with the proteases for their activation or regulate a pathway responsible for protease activation. To further study the mechanism(s) of VimA-dependent protease activation, the vimA gene product was further characterized. A 39 kDa protein consistent with the size of the predicted VimA protein was purified. In protein–protein interaction studies, the VimA protein was shown to interact with gingipains RgpA, RgpB and Kgp. Immune sera from mice immunized with P. gingivalis immunoreacted with the purified VimA protein. Taken together, these data suggest an interaction of VimA with the gingipains and further confirm the role of this protein in their regulation or maturation.

scholarly journals One-plasmid tunable coexpression for mycobacterial protein-protein interaction studies

2009 ◽  
Vol 18 (11) ◽  
pp. 2316-2325 ◽  
Author(s):  
Yong Chang ◽  
David Mead ◽  
Vinay Dhodda ◽  
Phil Brumm ◽  
Brian G. Fox
Keyword(s):  
Protein Interaction ◽  
Protein Protein Interaction ◽  
Interaction Studies ◽  
Mycobacterial Protein

scholarly journals SpotLink enables sensitive and precise identification of site non-specific cross-links at the proteome scale

2022 ◽  
Author(s):  
Weijie Zhang ◽  
Pengyun Gong ◽  
Yichu Shan ◽  
Lili Zhao ◽  
Honeke Hu ◽  
...  
Keyword(s):  
Quality Control ◽  
Protein Interaction ◽  
Protein Complexes ◽  
Human Proteome ◽  
Cross Linking ◽  
Excellent Performance ◽  
Protein Protein Interaction ◽  
Proteome Database ◽  
Cross Links ◽  
Near Future

We developed SpotLink software for identifying site non-specific cross-links at the proteome scale. Contributed by the dual pointer dynamic pruning (DPDP) algorithm and the quality control of cross-linking sites, SpotLink identified more than 3000 cross-links from human proteome database with rich site information in a few days. We demonstrated that SpotLink outperformed other approaches in terms of sensitivity and precision on a simulated dataset and a protein complexes dataset with known structures. Additionally, we discovered some valuable protein-protein interaction (PPI) information contained in the protein complexes dataset and HeLa dataset, indicating the unique identification advantages of site non-specific cross-linking. The excellent performance of SpotLink will increase the usage of site non-specific cross-linking in the near future. SpotLink is publicly available on GitHub [https://github.com/DICP1810/SpotLink].

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