TY - JOUR
T1 - Comparative analysis of the Epstein-Barr virus encoded nuclear proteins of EBNA-3 family
AU - Yenamandra, Surya Pavan
AU - Sompallae, Ramakrishna
AU - Klein, George
AU - Kashuba, Elena
N1 - Funding Information:
We thank professor Chanchal K Mitra and Dr. Tatyana Sandalova for a fruitful discussion of this work. Swedish Institute, Cancer Foundation, a matching grant from the Concern Foundation, Los Angeles, and the Cancer Research Institute, New York supported this work.
PY - 2009/11
Y1 - 2009/11
N2 - It is known that the EBNA-3 family proteins (EBNA-3, -4 and -6, alternative nomenclature EBNA-3A, B and C correspondingly) show a limited sequence similarity. We have analyzed EBNA-3 proteins both at the primary sequence and secondary structure levels. EBNA-3 and EBNA-4 were structurally more similar compared to other combinations with EBNA-6. We found "Stonin Homology Domain" profile in EBNA-4 and "Proline Rich Domain" in all EBNA-3 family of proteins. We have also found positive and negative charge clusters in all three proteins and mixed charge clusters in EBNA-3. Charged clusters are believed to play an important role in interactions with DNA or signaling proteins. Additionally, unique primary sequence repeats were found in all three proteins.
AB - It is known that the EBNA-3 family proteins (EBNA-3, -4 and -6, alternative nomenclature EBNA-3A, B and C correspondingly) show a limited sequence similarity. We have analyzed EBNA-3 proteins both at the primary sequence and secondary structure levels. EBNA-3 and EBNA-4 were structurally more similar compared to other combinations with EBNA-6. We found "Stonin Homology Domain" profile in EBNA-4 and "Proline Rich Domain" in all EBNA-3 family of proteins. We have also found positive and negative charge clusters in all three proteins and mixed charge clusters in EBNA-3. Charged clusters are believed to play an important role in interactions with DNA or signaling proteins. Additionally, unique primary sequence repeats were found in all three proteins.
KW - Charge clusters
KW - EBNA3 family proteins
KW - Praline rich domain
KW - Secondary structure analysis
KW - Stonin homology domain
UR - http://www.scopus.com/inward/record.url?scp=70349787153&partnerID=8YFLogxK
U2 - 10.1016/j.compbiomed.2009.08.006
DO - 10.1016/j.compbiomed.2009.08.006
M3 - Article
C2 - 19762010
AN - SCOPUS:70349787153
SN - 0010-4825
VL - 39
SP - 1036
EP - 1042
JO - Computers in Biology and Medicine
JF - Computers in Biology and Medicine
IS - 11
ER -