{PDOC00651} {PS00829; GREAB_1} {PS00830; GREAB_2} {BEGIN} *********************************************************** * Prokaryotic transcription elongation factors signatures * *********************************************************** Bacterial proteins greA and greB [1,2] are necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites. Arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked DNA/RNA/ polymerase ternary complexes. Cleavage of the nascent transcript by cleavage factors, such as greA or greB, allows the resumption of elongation from the new 3'terminus. GreA induces cleavage 2 or 3 nucleotides behind the terminus while greB releases longer sequences up to 9 nucleotides in length. GreA and greB are related proteins of about 160 amino-acid residues. We have developed two signature patterns for this protein family. The first corresponds to a conserved region in the N-terminal section, the second to a region in the C-terminal section. -Consensus pattern: [EKH]-[LHVI]-x(9,10)-[IVNLR]-x(3)-[LIV]-x(6)-G-D-x(2)-E-N- [GSA]-x-Y -Sequences known to belong to this class detected by the pattern: ALL. -Other sequence(s) detected in Swiss-Prot: NONE. -Consensus pattern: S-x(2)-S-[PK]-[LIVMF]-[AG]-x-[SAGNE]-[LIVM]-[LIVY]-x(4)- [DNG]-[DE] -Sequences known to belong to this class detected by the pattern: ALL. -Other sequence(s) detected in Swiss-Prot: NONE. -Last update: December 2004 / Pattern and text revised. [ 1] Borukhov S., Sagitov V., Goldfarb A. "Transcript cleavage factors from E. coli." Cell 72:459-466(1993). PubMed=8431948 [ 2] Stebbins C.E., Borukhov S., Orlova M., Polyakov A., Goldfarb A., Darst S.A. "Crystal structure of the GreA transcript cleavage factor from Escherichia coli." Nature 373:636-640(1995). PubMed=7854424; DOI=10.1038/373636a0 -------------------------------------------------------------------------------- PROSITE is copyrighted by the SIB Swiss Institute of Bioinformatics and distributed under the Creative Commons Attribution-NonCommercial-NoDerivatives (CC BY-NC-ND 4.0) License, see https://prosite.expasy.org/prosite_license.html -------------------------------------------------------------------------------- {END}