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Research in Molecular Medicine، جلد ۳، شماره ۱، صفحات ۵-۹
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| عنوان فارسی |
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| چکیده فارسی مقاله |
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| کلیدواژه‌های فارسی مقاله |
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| عنوان انگلیسی |
Study of PKA binding sites in cAMP-signaling pathway using structural protein-protein interaction networks |
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| چکیده انگلیسی مقاله |
Backgroud: Protein-protein interaction, plays a key role in signal transduction in signaling pathways. Different approaches are used for prediction of these interactions including experimental and computational approaches. In conventional node-edge protein-protein interaction networks, we can only see which proteins interact but ‘structural networks’ show us how these proteins interact which can give us so much information about the network. Structural networks help us understand the molecular basis of cellular functions and regulatory mechanisms in signaling pathways. In this study, we aimed to construct a structural network for a part of cAMP signaling pathway which has PKA (cAMP-dependent protein kinase catalytic subunit alpha) as the hub. Materials and Methods: A part of cAMP signaling pathway was selected from kegg database and interactions of PKA as hub protein with some of its partners were achieved using Hex8.00 software. The interfaces of the resulted complexes were predicted by KFC2 server. Results: Hex8.00, as a docking software, gave us the complexes from the interaction of PKA with 15 proteins of its partners. For each complex, the KFC2 server gave us the amino acid composition of the interfaces. Using this amino acid composition, we draw a structural network which shows the binding sites on PKA surface. Conclusion: We have constructed a structural network for cAMP signaling pathway which shows how PKA interacts with its partners. This network can be used for understanding the mechanisms of signal transduction and also for drug design purposes. |
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| کلیدواژه‌های انگلیسی مقاله |
structural network, cAMP signaling pathway, interface |
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| نویسندگان مقاله |
نسرین امیری داش اتان | nasrin amiri dash atan
proteomics research center, tajrish, darband street, faculty of paramedical sciences, shahid beheshti university of medical sciences, tehran, iran
سازمان اصلی تایید شده: دانشگاه علوم پزشکی شهید بهشتی (Shahid beheshti university of medical sciences)
ریحانه فرخی یکتا | reyhaneh farrokhi yekta
proteomics research center, tajrish, darband street, faculty of paramedical sciences, shahid beheshti university of medical sciences, tehran, iran
سازمان اصلی تایید شده: دانشگاه علوم پزشکی شهید بهشتی (Shahid beheshti university of medical sciences)
مهدی کوشکی | mehdi koushki
tehran university of medical siences school of medicine
سازمان اصلی تایید شده: دانشگاه تهران (Tehran university)
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| نشانی اینترنتی |
http://rmm.mazums.ac.ir/browse.php?a_code=A-10-708-1&slc_lang=en&sid=en |
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| کد مقاله (doi) |
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| زبان مقاله منتشر شده |
en |
| موضوعات مقاله منتشر شده |
بیولوژی |
| نوع مقاله منتشر شده |
پژوهشی |
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