rps2tree
pfam02123 pfam02123_RdRP_4
pfam02123, RdRP_4, Viral RNA-directed RNA-polymerase. This family includes RNA-dependent RNA polymerase proteins (RdRPs) from Luteovirus, Totivirus and Rotavirus.
pfam02123_RdRP_4/seq_aligned.final_tree.fa
pfam02123_RdRP_4/otu_cluster.csv
pfam02123_RdRP_4/cluster_nb_reads_files.tab
pfam02123_RdRP_4/identity_matrix.csv
pfam00680 pfam00680_RdRP_1
pfam00680, RdRP_1, RNA dependent RNA polymerase.
pfam00680_RdRP_1/seq_aligned.final_tree.fa
pfam00680_RdRP_1/otu_cluster.csv
pfam00680_RdRP_1/cluster_nb_reads_files.tab
pfam00680_RdRP_1/identity_matrix.csv
pfam00665 pfam00665_rve
pfam00665, rve, Integrase core domain. Integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains. The amino-terminal domain is a zinc binding domain pfam02022. This domain is the central catalytic domain. The carboxyl terminal domain that is a non-specific DNA binding domain pfam00552. The catalytic domain acts as an endonuclease when two nucleotides are removed from the 3' ends of the blunt-ended viral DNA made by reverse transcription. This domain also catalyzes the DNA strand transfer reaction of the 3' ends of the viral DNA to the 5' ends of the integration site.
pfam00665_rve/seq_aligned.final_tree.fa
pfam00665_rve/otu_cluster.csv
pfam00665_rve/cluster_nb_reads_files.tab
pfam00665_rve/identity_matrix.csv
pfam01443 pfam01443_Viral_helicase1
pfam01443, Viral_helicase1, Viral (Superfamily 1) RNA helicase. Helicase activity for this family has been demonstrated and NTPase activity. This helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis.
pfam01443_Viral_helicase1/seq_aligned.final_tree.fa
pfam01443_Viral_helicase1/otu_cluster.csv
pfam01443_Viral_helicase1/cluster_nb_reads_files.tab
pfam01443_Viral_helicase1/identity_matrix.csv
pfam00078 pfam00078_RVT_1
pfam00078, RVT_1, Reverse transcriptase (RNA-dependent DNA polymerase). 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.
pfam00078_RVT_1/seq_aligned.final_tree.fa
pfam00078_RVT_1/otu_cluster.csv
pfam00078_RVT_1/cluster_nb_reads_files.tab
pfam00078_RVT_1/identity_matrix.csv
pfam01787 pfam01787_Ilar_coat
pfam01787, Ilar_coat, Ilarvirus coat protein. This family consists of various coat proteins from the ilarviruses part of the Bromoviridae, members include apple mosaic virus and prune dwarf virus. The ilarvirus coat protein is required to initiate replication of the viral genome in host plants. Members of the Bromoviridae have a positive stand ssRNA genome with no DNA stage in there replication.
pfam01787_Ilar_coat/seq_aligned.final_tree.fa
pfam01787_Ilar_coat/otu_cluster.csv
pfam01787_Ilar_coat/cluster_nb_reads_files.tab
pfam01787_Ilar_coat/identity_matrix.csv
pfam01573 pfam01573_Bromo_MP
pfam01573, Bromo_MP, Bromovirus movement protein.
pfam01573_Bromo_MP/seq_aligned.final_tree.fa
pfam01573_Bromo_MP/otu_cluster.csv
pfam01573_Bromo_MP/cluster_nb_reads_files.tab
pfam01573_Bromo_MP/identity_matrix.csv