Protein Family Models

A reverse transcriptase gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. Reverse transcriptases occur in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and caulimoviruses. [1]. 1698615. Origin and evolution of retroelements based upon their reverse. transcriptase sequences.. Xiong Y, Eickbush TH;. EMBO J 1990;9:3353-3362. (from Pfam)

Date:

2024-08-14

This family represents the RNA-directed RNA polymerase found in many positive strand RNA eukaryotic viruses. Structural studies indicate that these proteins form the "right hand" structure found in all oligonucleotide polymerases, containing thumb, finger and palm domains, and also the additional bridging finger and thumb domains unique to RNA-directed RNA polymerases [1,2,3,4]. Remdesivir, a recent treatment approved for Covid-19 disease, directly interacts with this region of the RdRp (NSP12) from SARS-CoV-2 and explains its mechanism of action via delayed-chain termination [5]. [1]. 29439438. RNA Dependent RNA Polymerases: Insights from Structure, Function. and Evolution.. Venkataraman S, Prasad BVLS, Selvarajan R;. Viruses. 2018; [Epub ahead of print]. [2]. 15306852. Structural basis for proteolysis-dependent activation of the. poliovirus RNA-dependent RNA polymerase.. Thompson AA, Peersen OB;. EMBO J. 2004;23:3462-3471.. [3]. 31138817. Structure of the SARS-CoV nsp12 polymerase bound to nsp7 and. nsp8 co-factors.. Kirchdoerfer RN, Ward AB;. Nat Commun. 2019;10:2342.. [4]. 32438371. Structure of replicating SARS-CoV-2 polymerase.. Hillen HS, Kokic G, Farnung L, Dienemann C, Tegunov D, Cramer P;. Nature. 2020;584:154-156.. [5]. 34580920. Evolution of the SARS-CoV-2 proteome in three dimensions (3D). during the first 6 months of the COVID-19 pandemic.. Lubin JH, Zardecki C, Dolan EM, Lu C, Shen Z, Dutta S, Westbrook. JD, Hudson BP, Goodsell DS, Williams JK, Voigt M, Sarma V, Xie. L, Venkatachalam T, Arnold S, Alfaro Alvarado LH, Catalfano K,. Khan A, McCarthy E, Staggers S, Tinsley B, Trudeau A, Singh J,. Whitmore L, Zh. TRUNCATED at 1650 bytes (from Pfam)

Date:

2024-08-14

group II intron reverse transcriptase/maturase, a component of group II introns, is a ribozyme that catalyzes its own excision from precursor RNAs and the subsequent ligation of flanking exons

Date:

2022-12-12

Members of this protein family are multifunctional proteins encoded in most examples of bacterial group II introns. These group II introns are mobile selfish genetic elements, often with multiple highly identical copies per genome. Member proteins have an N-terminal reverse transcriptase (RNA-directed DNA polymerase) domain (PF00078) followed by an RNA-binding maturase domain (PF08388). Some members of this family may have an additional C-terminal DNA endonuclease domain that this model does not cover. A region of the group II intron ribozyme structure should be detectable nearby on the genome by Rfam model RF00029.

Gene:

ltrA

Date:

2021-04-27