reverse transcriptase family protein may be an RNA-directed DNA polymerase that catalyzes DNA replication from an RNA template of retrotransposons or retrons
RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The ...
46-253
5.25e-95
RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA branches out from a small ssRNA molecule via a 2'-5'phosphodiester linkage. Bacterial retron RTs produce cDNA corresponding to only a small portion of the retron genome.
:
Pssm-ID: 239569 [Multi-domain] Cd Length: 214 Bit Score: 280.23 E-value: 5.25e-95
RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The ...
46-253
5.25e-95
RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA branches out from a small ssRNA molecule via a 2'-5'phosphodiester linkage. Bacterial retron RTs produce cDNA corresponding to only a small portion of the retron genome.
Pssm-ID: 239569 [Multi-domain] Cd Length: 214 Bit Score: 280.23 E-value: 5.25e-95
retron St85 family RNA-directed DNA polymerase; All members of the seed alignment are reverse ...
26-302
6.64e-81
retron St85 family RNA-directed DNA polymerase; All members of the seed alignment are reverse transcriptases St85-like systems. However, members of this family may include reverse transcriptases from other types of retron system.
Pssm-ID: 468421 [Multi-domain] Cd Length: 290 Bit Score: 247.04 E-value: 6.64e-81
Reverse transcriptase (RNA-dependent DNA polymerase); A reverse transcriptase gene is usually ...
49-235
7.89e-22
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.
Pssm-ID: 395031 [Multi-domain] Cd Length: 189 Bit Score: 90.82 E-value: 7.89e-22
RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The ...
46-253
5.25e-95
RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA branches out from a small ssRNA molecule via a 2'-5'phosphodiester linkage. Bacterial retron RTs produce cDNA corresponding to only a small portion of the retron genome.
Pssm-ID: 239569 [Multi-domain] Cd Length: 214 Bit Score: 280.23 E-value: 5.25e-95
retron St85 family RNA-directed DNA polymerase; All members of the seed alignment are reverse ...
26-302
6.64e-81
retron St85 family RNA-directed DNA polymerase; All members of the seed alignment are reverse transcriptases St85-like systems. However, members of this family may include reverse transcriptases from other types of retron system.
Pssm-ID: 468421 [Multi-domain] Cd Length: 290 Bit Score: 247.04 E-value: 6.64e-81
Reverse transcriptase (RNA-dependent DNA polymerase); A reverse transcriptase gene is usually ...
49-235
7.89e-22
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.
Pssm-ID: 395031 [Multi-domain] Cd Length: 189 Bit Score: 90.82 E-value: 7.89e-22
RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is ...
107-235
1.57e-19
RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and caulimoviruses. These elements can be divided into two major groups. One group contains retroviruses and DNA viruses whose propagation involves an RNA intermediate. They are grouped together with transposable elements containing long terminal repeats (LTRs). The other group, also called poly(A)-type retrotransposons, contain fungal mitochondrial introns and transposable elements that lack LTRs.
Pssm-ID: 238185 [Multi-domain] Cd Length: 98 Bit Score: 82.01 E-value: 1.57e-19
RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA ...
40-219
1.74e-19
RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable element with both gag-like and pol-like genes. This subfamily of proteins appears to have captured the RT sequences from transposable elements, which lack long terminal repeats (LTRs).
Pssm-ID: 238828 [Multi-domain] Cd Length: 226 Bit Score: 85.33 E-value: 1.74e-19
RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The ...
107-222
1.88e-10
RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA branches out from a small ssRNA molecule via a 2'-5'phosphodiester linkage. Bacterial retron RTs produce cDNA corresponding to only a small portion of the retron genome.
Pssm-ID: 238824 [Multi-domain] Cd Length: 158 Bit Score: 58.49 E-value: 1.88e-10
RT_nLTR: Non-LTR (long terminal repeat) retrotransposon and non-LTR retrovirus reverse transcriptase (RT). This subfamily contains both non-LTR retrotransposons and non-LTR retrovirus RTs. RTs catalyze the conversion of single-stranded RNA into double-stranded DNA for integration into host chromosomes. RT is a multifunctional enzyme with RNA-directed DNA polymerase, DNA directed DNA polymerase and ribonuclease hybrid (RNase H) activities.
Pssm-ID: 238827 [Multi-domain] Cd Length: 220 Bit Score: 55.38 E-value: 5.63e-09
Database: CDSEARCH/cdd Low complexity filter: no Composition Based Adjustment: yes E-value threshold: 0.01
References:
Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
of the residues that compose this conserved feature have been mapped to the query sequence.
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