Picornaviridae P3A protein; This family consists of the P3A protein of picornaviridae. P3A has ...
1066-1150
2.36e-40
Picornaviridae P3A protein; This family consists of the P3A protein of picornaviridae. P3A has been identified as a genome-linked protein (VPg) and is involved in replication.
The actual alignment was detected with superfamily member pfam06363:
Pssm-ID: 368858 Cd Length: 98 Bit Score: 144.15 E-value: 2.36e-40
RNA helicase; This family includes RNA helicases thought to be involved in duplex unwinding ...
926-1028
3.97e-38
RNA helicase; This family includes RNA helicases thought to be involved in duplex unwinding during viral RNA replication. Members of this family are found in a variety of single stranded RNA viruses.
:
Pssm-ID: 459992 Cd Length: 102 Bit Score: 138.12 E-value: 3.97e-38
Picornavirus capsid protein domain_like. Picornaviruses are non-enveloped plus-strand ssRNA ...
73-236
4.26e-19
Picornavirus capsid protein domain_like. Picornaviruses are non-enveloped plus-strand ssRNA animal viruses with icosahedral capsids composed of 60 copies each of 4 virus encoded proteins; alignment includes picornaviridae, like poliovirus, hepatitis A virus, rhinovirus, foot-and-mouth disease virus and encephalomyocarditis virus; common structure is an 8-stranded beta sandwich
:
Pssm-ID: 119412 Cd Length: 178 Bit Score: 86.30 E-value: 4.26e-19
Picornaviridae P3A protein; This family consists of the P3A protein of picornaviridae. P3A has ...
1066-1150
2.36e-40
Picornaviridae P3A protein; This family consists of the P3A protein of picornaviridae. P3A has been identified as a genome-linked protein (VPg) and is involved in replication.
Pssm-ID: 368858 Cd Length: 98 Bit Score: 144.15 E-value: 2.36e-40
RNA helicase; This family includes RNA helicases thought to be involved in duplex unwinding ...
926-1028
3.97e-38
RNA helicase; This family includes RNA helicases thought to be involved in duplex unwinding during viral RNA replication. Members of this family are found in a variety of single stranded RNA viruses.
Pssm-ID: 459992 Cd Length: 102 Bit Score: 138.12 E-value: 3.97e-38
Picornavirus capsid protein domain_like. Picornaviruses are non-enveloped plus-strand ssRNA ...
73-236
4.26e-19
Picornavirus capsid protein domain_like. Picornaviruses are non-enveloped plus-strand ssRNA animal viruses with icosahedral capsids composed of 60 copies each of 4 virus encoded proteins; alignment includes picornaviridae, like poliovirus, hepatitis A virus, rhinovirus, foot-and-mouth disease virus and encephalomyocarditis virus; common structure is an 8-stranded beta sandwich
Pssm-ID: 119412 Cd Length: 178 Bit Score: 86.30 E-value: 4.26e-19
picornavirus capsid protein; CAUTION: This alignment is very weak. It can not be generated by ...
107-191
7.63e-04
picornavirus capsid protein; CAUTION: This alignment is very weak. It can not be generated by clustalw. If a representative set is used for a seed, many so-called members are not recognized. The family should probably be split up into sub-families. Capsid proteins of picornaviruses. Picornaviruses are non-enveloped plus-strand ssRNA animal viruses with icosahedral capsids. They include rhinovirus (common cold) and poliovirus. Common structure is an 8-stranded beta sandwich. Variations (one or two extra strands) occur.
Pssm-ID: 395026 Cd Length: 170 Bit Score: 41.91 E-value: 7.63e-04
Picornaviridae P3A protein; This family consists of the P3A protein of picornaviridae. P3A has ...
1066-1150
2.36e-40
Picornaviridae P3A protein; This family consists of the P3A protein of picornaviridae. P3A has been identified as a genome-linked protein (VPg) and is involved in replication.
Pssm-ID: 368858 Cd Length: 98 Bit Score: 144.15 E-value: 2.36e-40
RNA helicase; This family includes RNA helicases thought to be involved in duplex unwinding ...
926-1028
3.97e-38
RNA helicase; This family includes RNA helicases thought to be involved in duplex unwinding during viral RNA replication. Members of this family are found in a variety of single stranded RNA viruses.
Pssm-ID: 459992 Cd Length: 102 Bit Score: 138.12 E-value: 3.97e-38
Picornavirus capsid protein domain_like. Picornaviruses are non-enveloped plus-strand ssRNA ...
73-236
4.26e-19
Picornavirus capsid protein domain_like. Picornaviruses are non-enveloped plus-strand ssRNA animal viruses with icosahedral capsids composed of 60 copies each of 4 virus encoded proteins; alignment includes picornaviridae, like poliovirus, hepatitis A virus, rhinovirus, foot-and-mouth disease virus and encephalomyocarditis virus; common structure is an 8-stranded beta sandwich
Pssm-ID: 119412 Cd Length: 178 Bit Score: 86.30 E-value: 4.26e-19
picornavirus capsid protein; CAUTION: This alignment is very weak. It can not be generated by ...
107-191
7.63e-04
picornavirus capsid protein; CAUTION: This alignment is very weak. It can not be generated by clustalw. If a representative set is used for a seed, many so-called members are not recognized. The family should probably be split up into sub-families. Capsid proteins of picornaviruses. Picornaviruses are non-enveloped plus-strand ssRNA animal viruses with icosahedral capsids. They include rhinovirus (common cold) and poliovirus. Common structure is an 8-stranded beta sandwich. Variations (one or two extra strands) occur.
Pssm-ID: 395026 Cd Length: 170 Bit Score: 41.91 E-value: 7.63e-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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of your query sequence and the protein sequences used to curate the domain model,
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The thumbnail image, if present, provides an approximate view of the feature's location in 3 dimensions.
Click on the triangle for interactive 3D structure viewing options.
Functional characterization of the conserved domain architecture found on the query.
Click here to see more details.
This image shows a graphical summary of conserved domains identified on the query sequence.
The Show Concise/Full Display button at the top of the page can be used to select the desired level of detail: only top scoring hits
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Domains are color coded according to superfamilies
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if a domain or superfamily has been annotated with functional sites (conserved features),
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click on the bars or triangles to view your query sequence embedded in a multiple sequence alignment of the proteins used to develop the corresponding domain model.
The table lists conserved domains identified on the query sequence. Click on the plus sign (+) on the left to display full descriptions, alignments, and scores.
Click on the domain model's accession number to view the multiple sequence alignment of the proteins used to develop the corresponding domain model.
To view your query sequence embedded in that multiple sequence alignment, click on the colored bars in the Graphical Summary portion of the search results page,
or click on the triangles, if present, that represent functional sites (conserved features)
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Concise Display shows only the best scoring domain model, in each hit category listed below except non-specific hits, for each region on the query sequence.
(labeled illustration) Standard Display shows only the best scoring domain model from each source, in each hit category listed below for each region on the query sequence.
(labeled illustration) Full Display shows all domain models, in each hit category below, that meet or exceed the RPS-BLAST threshold for statistical significance.
(labeled illustration) Four types of hits can be shown, as available,
for each region on the query sequence:
specific hits meet or exceed a domain-specific e-value threshold
(illustrated example)
and represent a very high confidence that the query sequence belongs to the same protein family as the sequences use to create the domain model
non-specific hits
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advanced search options)
the domain superfamily to which the specific and non-specific hits belong
multi-domain models that were computationally detected and are likely to contain multiple single domains
Retrieve proteins that contain one or more of the domains present in the query sequence, using the Conserved Domain Architecture Retrieval Tool
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