Bunyavirus RNA dependent RNA polymerase; The bunyaviruses are enveloped viruses with a genome ...
1066-1802
0e+00
Bunyavirus RNA dependent RNA polymerase; The bunyaviruses are enveloped viruses with a genome consisting of 3 ssRNA segments (called L, M and S). The nucleocapsid protein is encode on the small (S) genomic RNA. The L segment codes for an RNA polymerase. This family contains the RNA dependent RNA polymerase on the L segment.
The actual alignment was detected with superfamily member pfam04196:
Pssm-ID: 282102 Cd Length: 739 Bit Score: 710.40 E-value: 0e+00
Protein of unknown function (DUF3770); This domain family is found in viruses, and is ...
648-889
1.05e-56
Protein of unknown function (DUF3770); This domain family is found in viruses, and is approximately 250 amino acids in length. The family is found in association with pfam04196.
The actual alignment was detected with superfamily member pfam12603:
Pssm-ID: 289377 Cd Length: 235 Bit Score: 197.53 E-value: 1.05e-56
OTU (ovarian tumor) domain family; The OTU family of cysteine proteases use a conserved ...
39-151
2.34e-09
OTU (ovarian tumor) domain family; The OTU family of cysteine proteases use a conserved cysteine and histidine, and in most cases an aspartate, as the catalytic triad. OTU domains typically function as deubiquitinases (DUBs)/ubiquitin thiolesterases (EC 3.4.19.12) that catalyze the thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C-terminal Gly of ubiquitin, a small regulatory protein that can be conjugated to a large range of target proteins. Protein ubiquitination is a post-translational modification of mostly Lys residues that regulates many cellular processes, including protein degradation, intracellular trafficking, cell signaling, autophagy, transcription, translation, and the DNA damage response. These DUBs may play important regulatory roles at the level of protein turnover by preventing degradation.
The actual alignment was detected with superfamily member cd22792:
Pssm-ID: 459237 [Multi-domain] Cd Length: 108 Bit Score: 57.23 E-value: 2.34e-09
MUN domain; This entry corresponds to the MUN domain found in Munc13 proteins. These ...
2326-2391
9.74e-04
MUN domain; This entry corresponds to the MUN domain found in Munc13 proteins. These constitute a family of three highly homologous molecules (Munc13-1, Munc13-2 and Munc13-3) with homology to Caenorhabditis elegans unc-13p. Munc13 proteins contain a phorbol ester-binding C1 domain and two C2 domains, which are Ca2+/phospholipid binding domains. Sequence analyses have uncovered two regions called Munc13 homology domains 1 (MHD1) and 2 (MHD2) that are arranged between two flanking C2 domains. MHD1 and MHD2 domains are present in a wide variety of proteins from Arabidopsis thaliana, C. elegans, Drosophila melanogaster, mouse, rat and human, some of which may function in a Munc13-like manner to regulate membrane trafficking. Structural studies have defined MHD1 and MHD2 to be part of the larger MUN domain which forms an elongated structure composed of any pairs of alpha helices.
The actual alignment was detected with superfamily member pfam06292:
Pssm-ID: 461870 Cd Length: 473 Bit Score: 44.70 E-value: 9.74e-04
Bunyavirus RNA dependent RNA polymerase; The bunyaviruses are enveloped viruses with a genome ...
1066-1802
0e+00
Bunyavirus RNA dependent RNA polymerase; The bunyaviruses are enveloped viruses with a genome consisting of 3 ssRNA segments (called L, M and S). The nucleocapsid protein is encode on the small (S) genomic RNA. The L segment codes for an RNA polymerase. This family contains the RNA dependent RNA polymerase on the L segment.
Pssm-ID: 282102 Cd Length: 739 Bit Score: 710.40 E-value: 0e+00
Protein of unknown function (DUF3770); This domain family is found in viruses, and is ...
648-889
1.05e-56
Protein of unknown function (DUF3770); This domain family is found in viruses, and is approximately 250 amino acids in length. The family is found in association with pfam04196.
Pssm-ID: 289377 Cd Length: 235 Bit Score: 197.53 E-value: 1.05e-56
OTU (ovarian tumor) domain of the potexviruses/carlaviruses RNA replication protein family; ...
39-151
2.34e-09
OTU (ovarian tumor) domain of the potexviruses/carlaviruses RNA replication protein family; RNA replication polyprotein (RDRP) is a viral homolog of ovarian tumor protease (vOTU), which displays RNA helicase (EC 3.6.4.13), RNA-directed RNA polymerase (EC 2.7.7.48), viral methyltransferase, Fe(2+) 2-oxoglutarate dioxygenase and protease activities. The central part of this protein possibly functions as an ATP-binding helicase. It is an RNA-directed RNA polymerase involved in viral RNA replication. It also acts as a thiol protease that cleaves the polyprotein. This subfamily belongs to the OTU family of cysteine proteases that use a conserved cysteine, histidine, and an aspartate, as the catalytic triad.
Pssm-ID: 438613 [Multi-domain] Cd Length: 108 Bit Score: 57.23 E-value: 2.34e-09
MUN domain; This entry corresponds to the MUN domain found in Munc13 proteins. These ...
2326-2391
9.74e-04
MUN domain; This entry corresponds to the MUN domain found in Munc13 proteins. These constitute a family of three highly homologous molecules (Munc13-1, Munc13-2 and Munc13-3) with homology to Caenorhabditis elegans unc-13p. Munc13 proteins contain a phorbol ester-binding C1 domain and two C2 domains, which are Ca2+/phospholipid binding domains. Sequence analyses have uncovered two regions called Munc13 homology domains 1 (MHD1) and 2 (MHD2) that are arranged between two flanking C2 domains. MHD1 and MHD2 domains are present in a wide variety of proteins from Arabidopsis thaliana, C. elegans, Drosophila melanogaster, mouse, rat and human, some of which may function in a Munc13-like manner to regulate membrane trafficking. Structural studies have defined MHD1 and MHD2 to be part of the larger MUN domain which forms an elongated structure composed of any pairs of alpha helices.
Pssm-ID: 461870 Cd Length: 473 Bit Score: 44.70 E-value: 9.74e-04
Bunyavirus RNA dependent RNA polymerase; The bunyaviruses are enveloped viruses with a genome ...
1066-1802
0e+00
Bunyavirus RNA dependent RNA polymerase; The bunyaviruses are enveloped viruses with a genome consisting of 3 ssRNA segments (called L, M and S). The nucleocapsid protein is encode on the small (S) genomic RNA. The L segment codes for an RNA polymerase. This family contains the RNA dependent RNA polymerase on the L segment.
Pssm-ID: 282102 Cd Length: 739 Bit Score: 710.40 E-value: 0e+00
Protein of unknown function (DUF3770); This domain family is found in viruses, and is ...
648-889
1.05e-56
Protein of unknown function (DUF3770); This domain family is found in viruses, and is approximately 250 amino acids in length. The family is found in association with pfam04196.
Pssm-ID: 289377 Cd Length: 235 Bit Score: 197.53 E-value: 1.05e-56
OTU (ovarian tumor) domain of the potexviruses/carlaviruses RNA replication protein family; ...
39-151
2.34e-09
OTU (ovarian tumor) domain of the potexviruses/carlaviruses RNA replication protein family; RNA replication polyprotein (RDRP) is a viral homolog of ovarian tumor protease (vOTU), which displays RNA helicase (EC 3.6.4.13), RNA-directed RNA polymerase (EC 2.7.7.48), viral methyltransferase, Fe(2+) 2-oxoglutarate dioxygenase and protease activities. The central part of this protein possibly functions as an ATP-binding helicase. It is an RNA-directed RNA polymerase involved in viral RNA replication. It also acts as a thiol protease that cleaves the polyprotein. This subfamily belongs to the OTU family of cysteine proteases that use a conserved cysteine, histidine, and an aspartate, as the catalytic triad.
Pssm-ID: 438613 [Multi-domain] Cd Length: 108 Bit Score: 57.23 E-value: 2.34e-09
OTU (ovarian tumor) domain family; The OTU family of cysteine proteases use a conserved ...
40-154
5.45e-08
OTU (ovarian tumor) domain family; The OTU family of cysteine proteases use a conserved cysteine and histidine, and in most cases an aspartate, as the catalytic triad. OTU domains typically function as deubiquitinases (DUBs)/ubiquitin thiolesterases (EC 3.4.19.12) that catalyze the thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C-terminal Gly of ubiquitin, a small regulatory protein that can be conjugated to a large range of target proteins. Protein ubiquitination is a post-translational modification of mostly Lys residues that regulates many cellular processes, including protein degradation, intracellular trafficking, cell signaling, autophagy, transcription, translation, and the DNA damage response. These DUBs may play important regulatory roles at the level of protein turnover by preventing degradation.
Pssm-ID: 438581 [Multi-domain] Cd Length: 128 Bit Score: 53.98 E-value: 5.45e-08
OTU (ovarian tumor) domain of Invertebrate iridescent virus putative ubiquitin thioesterase ...
40-154
6.36e-06
OTU (ovarian tumor) domain of Invertebrate iridescent virus putative ubiquitin thioesterase 232R and similar proteins; This subfamily contains putative ubiquitin thioesterases 232R from Invertebrate iridescent virus and L96 from Tipula iridescent virus (TIV), Dictyostelium discoideum OTU domain-containing protein DDB_G0284757, and similar proteins. L96 may be involved in TIV genomic DNA packaging in a manner related to the Gag polyproteins of the mammalian viruses. Proteins in this subfamily contain an OTU domain. OTU domains typically function as deubiquitinases (DUBs)/ubiquitin thiolesterases (EC 3.4.19.12) that catalyze the thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C-terminal Gly of ubiquitin, a small regulatory protein that can be conjugated to a large range of target proteins. Protein ubiquitination is a post-translational modification of mostly Lys residues that regulates many cellular processes, including protein degradation, intracellular trafficking, cell signaling, autophagy, transcription, translation, and the DNA damage response. These DUBs may play important regulatory roles at the level of protein turnover by preventing degradation. They belong to the OTU family of cysteine proteases that use a conserved cysteine, histidine, and an aspartate, as the catalytic triad.
Pssm-ID: 438595 [Multi-domain] Cd Length: 135 Bit Score: 48.03 E-value: 6.36e-06
MUN domain; This entry corresponds to the MUN domain found in Munc13 proteins. These ...
2326-2391
9.74e-04
MUN domain; This entry corresponds to the MUN domain found in Munc13 proteins. These constitute a family of three highly homologous molecules (Munc13-1, Munc13-2 and Munc13-3) with homology to Caenorhabditis elegans unc-13p. Munc13 proteins contain a phorbol ester-binding C1 domain and two C2 domains, which are Ca2+/phospholipid binding domains. Sequence analyses have uncovered two regions called Munc13 homology domains 1 (MHD1) and 2 (MHD2) that are arranged between two flanking C2 domains. MHD1 and MHD2 domains are present in a wide variety of proteins from Arabidopsis thaliana, C. elegans, Drosophila melanogaster, mouse, rat and human, some of which may function in a Munc13-like manner to regulate membrane trafficking. Structural studies have defined MHD1 and MHD2 to be part of the larger MUN domain which forms an elongated structure composed of any pairs of alpha helices.
Pssm-ID: 461870 Cd Length: 473 Bit Score: 44.70 E-value: 9.74e-04
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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