TY - GEN
T1 - PTM Tracker
T2 - 2016 IEEE International Conference on Electro Information Technology, EIT 2016
AU - Bonham-Carter, Oliver
AU - Bastola, Dhundy R.
N1 - Publisher Copyright:
© 2016 IEEE.
PY - 2016/8/5
Y1 - 2016/8/5
N2 - Post-translational modifications (PTMs) increase protein functional diversity by modifying an amino acid at specific locations called modification sites (MSs) in protein. It is believed that domains are being influenced by PTMs at interacting MSs to determine the unique functional changes in protein and, in this scenario, it is likely that the exact position of the MS, relative to the domain, plays a major part in structural changes by PTM influence. In this study, we present a system called 'PTM Tracker', built from two main parts to study the general distances of MS amino acids which are relative to protein functional domains. In the first part, we apply our system to illustrate that unique organisms appear to have distinguishing locations where PTMs may be found in the proteome. These crowded locations of MS sites (called, 'neighbourhoods') are relative to protein domains. We describe how these MS neighbourhoods may be a conserved extension of the already-conserved domain. Since specific protein domain types may be found in diverse proteins, the second part of our system studies MS neighbourhood clusters, relative to user-selected domains. From the study of many different proteins containing the same domain type, we conclude trends to suggest that MS neighbourhoods have specific locations in protein, relative to the domains (where-ever the domain occurs naturally), with which they are likely to interact. We conclude that the study of these distances may help to understand interaction mechanisms and describe types of protein folding requirements.
AB - Post-translational modifications (PTMs) increase protein functional diversity by modifying an amino acid at specific locations called modification sites (MSs) in protein. It is believed that domains are being influenced by PTMs at interacting MSs to determine the unique functional changes in protein and, in this scenario, it is likely that the exact position of the MS, relative to the domain, plays a major part in structural changes by PTM influence. In this study, we present a system called 'PTM Tracker', built from two main parts to study the general distances of MS amino acids which are relative to protein functional domains. In the first part, we apply our system to illustrate that unique organisms appear to have distinguishing locations where PTMs may be found in the proteome. These crowded locations of MS sites (called, 'neighbourhoods') are relative to protein domains. We describe how these MS neighbourhoods may be a conserved extension of the already-conserved domain. Since specific protein domain types may be found in diverse proteins, the second part of our system studies MS neighbourhood clusters, relative to user-selected domains. From the study of many different proteins containing the same domain type, we conclude trends to suggest that MS neighbourhoods have specific locations in protein, relative to the domains (where-ever the domain occurs naturally), with which they are likely to interact. We conclude that the study of these distances may help to understand interaction mechanisms and describe types of protein folding requirements.
UR - http://www.scopus.com/inward/record.url?scp=84984598928&partnerID=8YFLogxK
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U2 - 10.1109/EIT.2016.7535288
DO - 10.1109/EIT.2016.7535288
M3 - Conference contribution
AN - SCOPUS:84984598928
T3 - IEEE International Conference on Electro Information Technology
SP - 482
EP - 487
BT - 2016 IEEE International Conference on Electro Information Technology, EIT 2016
PB - IEEE Computer Society
Y2 - 19 May 2016 through 21 May 2016
ER -