Picornavirus capsid protein domain_like. Picornaviruses are non-enveloped plus-strand ssRNA ...
61-231
4.20e-18
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: 82.83 E-value: 4.20e-18
Picornavirus capsid protein domain_like. Picornaviruses are non-enveloped plus-strand ssRNA ...
365-551
1.64e-15
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: 75.13 E-value: 1.64e-15
Cricket paralysis virus, VP4; This is a family of minor capsid proteins, known as VP4, from ...
247-299
2.37e-12
Cricket paralysis virus, VP4; This is a family of minor capsid proteins, known as VP4, from the dicistroviridae. The dicistroviridae is a group of small, RNA-containing viruses that are closely structurally related to the picornaviridae. VP4 is a short, extended polypeptide chain found within the viral capsid, at the interface between the external protein shell and packaged RNA genome.
The actual alignment was detected with superfamily member pfam11492:
Pssm-ID: 288362 Cd Length: 53 Bit Score: 62.23 E-value: 2.37e-12
CRPV capsid protein like; This is a family of capsid proteins found in positive stranded ssRNA ...
597-818
4.60e-12
CRPV capsid protein like; This is a family of capsid proteins found in positive stranded ssRNA viruses such as cricket paralysis virus (CRPV). It forms an all beta sheet structure.
The actual alignment was detected with superfamily member pfam08762:
Pssm-ID: 370104 Cd Length: 198 Bit Score: 65.64 E-value: 4.60e-12
Picornavirus capsid protein domain_like. Picornaviruses are non-enveloped plus-strand ssRNA ...
61-231
4.20e-18
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: 82.83 E-value: 4.20e-18
Picornavirus capsid protein domain_like. Picornaviruses are non-enveloped plus-strand ssRNA ...
365-551
1.64e-15
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: 75.13 E-value: 1.64e-15
Cricket paralysis virus, VP4; This is a family of minor capsid proteins, known as VP4, from ...
247-299
2.37e-12
Cricket paralysis virus, VP4; This is a family of minor capsid proteins, known as VP4, from the dicistroviridae. The dicistroviridae is a group of small, RNA-containing viruses that are closely structurally related to the picornaviridae. VP4 is a short, extended polypeptide chain found within the viral capsid, at the interface between the external protein shell and packaged RNA genome.
Pssm-ID: 288362 Cd Length: 53 Bit Score: 62.23 E-value: 2.37e-12
CRPV capsid protein like; This is a family of capsid proteins found in positive stranded ssRNA ...
597-818
4.60e-12
CRPV capsid protein like; This is a family of capsid proteins found in positive stranded ssRNA viruses such as cricket paralysis virus (CRPV). It forms an all beta sheet structure.
Pssm-ID: 370104 Cd Length: 198 Bit Score: 65.64 E-value: 4.60e-12
picornavirus capsid protein; CAUTION: This alignment is very weak. It can not be generated by ...
27-173
4.96e-03
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: 38.83 E-value: 4.96e-03
Picornavirus capsid protein domain_like. Picornaviruses are non-enveloped plus-strand ssRNA ...
61-231
4.20e-18
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: 82.83 E-value: 4.20e-18
Picornavirus capsid protein domain_like. Picornaviruses are non-enveloped plus-strand ssRNA ...
365-551
1.64e-15
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: 75.13 E-value: 1.64e-15
Cricket paralysis virus, VP4; This is a family of minor capsid proteins, known as VP4, from ...
247-299
2.37e-12
Cricket paralysis virus, VP4; This is a family of minor capsid proteins, known as VP4, from the dicistroviridae. The dicistroviridae is a group of small, RNA-containing viruses that are closely structurally related to the picornaviridae. VP4 is a short, extended polypeptide chain found within the viral capsid, at the interface between the external protein shell and packaged RNA genome.
Pssm-ID: 288362 Cd Length: 53 Bit Score: 62.23 E-value: 2.37e-12
CRPV capsid protein like; This is a family of capsid proteins found in positive stranded ssRNA ...
597-818
4.60e-12
CRPV capsid protein like; This is a family of capsid proteins found in positive stranded ssRNA viruses such as cricket paralysis virus (CRPV). It forms an all beta sheet structure.
Pssm-ID: 370104 Cd Length: 198 Bit Score: 65.64 E-value: 4.60e-12
picornavirus capsid protein; CAUTION: This alignment is very weak. It can not be generated by ...
27-173
4.96e-03
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: 38.83 E-value: 4.96e-03
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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