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Conserved domains on  [gi|1110864165|gb|APG76834|]
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hypothetical protein 2 [Beihai picorna-like virus 15]

Protein Classification

Dicistro_VP4 and rhv_like domain-containing protein( domain architecture ID 10082141)

Dicistro_VP4 and rhv_like domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
rhv_like cd00205
Picornavirus capsid protein domain_like. Picornaviruses are non-enveloped plus-strand ssRNA ...
 55-228 1.26e-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: 75.51  E-value: 1.26e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110864165  55 LGNFFSRPVKIQSYSW---ATGTNLFE---TFNPWQDFFENTrVLNRITN-FNLLRCKLKVRIVLNGNGFHYGRAIASYI 127
Cdd:cd00205     1 VESFADRPTTVGTNNWnssASGTQLFQwklSPALGFLLLQNT-PLGALLSyFTYWRGDLEVTVQFNGSKFHTGRLLVAYV 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110864165 128 PLHnldaftKDRPFFIQDVVAASQRPHVYLDPTTSQGGTLTLPFVWYENALRIPNQEWRE---MGDIIIHGMQNLKHANG 204
Cdd:cd00205    80 PPG------APAPTTGDTRWQATLNPHVIWDLGTNSSVTFVVPYVSPTPYRSTRYDGYGPlnsFGTLVVRVLTPLTVPSG 153

                         170       180
                  ....*....|....*....|....
gi 1110864165 205 ATDQVIVSVFAWAEEVSLSIPTAN 228
Cdd:cd00205   154 APTTVDITVYVRAGDFELYGPRPP 177
rhv_like cd00205
Picornavirus capsid protein domain_like. Picornaviruses are non-enveloped plus-strand ssRNA ...
 356-542 3.46e-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: 74.35  E-value: 3.46e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110864165 356 SIAQRESFLTQFGWAVADSAeTLLWNSEVSPVLWNELsgtndeLHMPACCFAALPFRRWRGTMKFRFQVVASSFHKGRLK 435
Cdd:cd00205     3 SFADRPTTVGTNNWNSSASG-TQLFQWKLSPALGFLL------LQNTPLGALLSYFTYWRGDLEVTVQFNGSKFHTGRLL 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110864165 436 ITYDP---SYPLTNEYN----TNYTYIIDLAKERDFTVAIgwghekslinhrnPIQSAIPYSTSALGADPGNYANGIISV 508
Cdd:cd00205    76 VAYVPpgaPAPTTGDTRwqatLNPHVIWDLGTNSSVTFVV-------------PYVSPTPYRSTRYDGYGPLNSFGTLVV 142

                         170       180       190
                  ....*....|....*....|....*....|....
gi 1110864165 509 YVVNDLTVPNSTAnNDIEVNVFVSAGdDFEVFDP 542
Cdd:cd00205   143 RVLTPLTVPSGAP-TTVDITVYVRAG-DFELYGP 174
Dicistro_VP4 super family cl13011
Cricket paralysis virus, VP4; This is a family of minor capsid proteins, known as VP4, from ...
 247-297 8.02e-08

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: 49.52  E-value: 8.02e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1110864165 247 DEYGTGPISRPAGIVAKAAGALSNIPGIGMYARATAMAANAVSGIASMFGY 297
Cdd:pfam11492   3 DETGEGVISEPATTVARVAGRLSDIPVIGTYAKTTEWVAGKVGSIAKLFGY 53
 
Name Accession Description Interval E-value
rhv_like cd00205
Picornavirus capsid protein domain_like. Picornaviruses are non-enveloped plus-strand ssRNA ...
 55-228 1.26e-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: 75.51  E-value: 1.26e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110864165  55 LGNFFSRPVKIQSYSW---ATGTNLFE---TFNPWQDFFENTrVLNRITN-FNLLRCKLKVRIVLNGNGFHYGRAIASYI 127
Cdd:cd00205     1 VESFADRPTTVGTNNWnssASGTQLFQwklSPALGFLLLQNT-PLGALLSyFTYWRGDLEVTVQFNGSKFHTGRLLVAYV 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110864165 128 PLHnldaftKDRPFFIQDVVAASQRPHVYLDPTTSQGGTLTLPFVWYENALRIPNQEWRE---MGDIIIHGMQNLKHANG 204
Cdd:cd00205    80 PPG------APAPTTGDTRWQATLNPHVIWDLGTNSSVTFVVPYVSPTPYRSTRYDGYGPlnsFGTLVVRVLTPLTVPSG 153

                         170       180
                  ....*....|....*....|....
gi 1110864165 205 ATDQVIVSVFAWAEEVSLSIPTAN 228
Cdd:cd00205   154 APTTVDITVYVRAGDFELYGPRPP 177
rhv_like cd00205
Picornavirus capsid protein domain_like. Picornaviruses are non-enveloped plus-strand ssRNA ...
 356-542 3.46e-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: 74.35  E-value: 3.46e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110864165 356 SIAQRESFLTQFGWAVADSAeTLLWNSEVSPVLWNELsgtndeLHMPACCFAALPFRRWRGTMKFRFQVVASSFHKGRLK 435
Cdd:cd00205     3 SFADRPTTVGTNNWNSSASG-TQLFQWKLSPALGFLL------LQNTPLGALLSYFTYWRGDLEVTVQFNGSKFHTGRLL 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110864165 436 ITYDP---SYPLTNEYN----TNYTYIIDLAKERDFTVAIgwghekslinhrnPIQSAIPYSTSALGADPGNYANGIISV 508
Cdd:cd00205    76 VAYVPpgaPAPTTGDTRwqatLNPHVIWDLGTNSSVTFVV-------------PYVSPTPYRSTRYDGYGPLNSFGTLVV 142

                         170       180       190
                  ....*....|....*....|....*....|....
gi 1110864165 509 YVVNDLTVPNSTAnNDIEVNVFVSAGdDFEVFDP 542
Cdd:cd00205   143 RVLTPLTVPSGAP-TTVDITVYVRAG-DFELYGP 174
Dicistro_VP4 pfam11492
Cricket paralysis virus, VP4; This is a family of minor capsid proteins, known as VP4, from ...
 247-297 8.02e-08

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: 49.52  E-value: 8.02e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1110864165 247 DEYGTGPISRPAGIVAKAAGALSNIPGIGMYARATAMAANAVSGIASMFGY 297
Cdd:pfam11492   3 DETGEGVISEPATTVARVAGRLSDIPVIGTYAKTTEWVAGKVGSIAKLFGY 53
Rhv pfam00073
picornavirus capsid protein; CAUTION: This alignment is very weak. It can not be generated by ...
 36-172 2.38e-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: 39.60  E-value: 2.38e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110864165  36 TVDSMPDPTFNIADTN-DADLGNffSRPVKIQSYSWATGTNLFETFnPWQDFFENTRVLNRITN-FNLLRCKLKVRIVLN 113
Cdd:pfam00073  15 NPLELAVENFLGRDAPvQPDVQG--ERFYTLDSTDWTSLSKGFFWW-KLPLALLSMGLLGRLLRyHTYYRGGLEVTVQFN 91

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1110864165 114 GNGFHYGRAIASYIPLHNLDafTKDRPFFIQdvvaASQRPHVYLDPTTSQGGTLTLPFV 172
Cdd:pfam00073  92 GSKFHQGKLLVAYVPPGAPP--PGSRDYLWQ----ATLNPHQFWNLGLNSSARLSVPYI 144
 
Name Accession Description Interval E-value
rhv_like cd00205
Picornavirus capsid protein domain_like. Picornaviruses are non-enveloped plus-strand ssRNA ...
 55-228 1.26e-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: 75.51  E-value: 1.26e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110864165  55 LGNFFSRPVKIQSYSW---ATGTNLFE---TFNPWQDFFENTrVLNRITN-FNLLRCKLKVRIVLNGNGFHYGRAIASYI 127
Cdd:cd00205     1 VESFADRPTTVGTNNWnssASGTQLFQwklSPALGFLLLQNT-PLGALLSyFTYWRGDLEVTVQFNGSKFHTGRLLVAYV 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110864165 128 PLHnldaftKDRPFFIQDVVAASQRPHVYLDPTTSQGGTLTLPFVWYENALRIPNQEWRE---MGDIIIHGMQNLKHANG 204
Cdd:cd00205    80 PPG------APAPTTGDTRWQATLNPHVIWDLGTNSSVTFVVPYVSPTPYRSTRYDGYGPlnsFGTLVVRVLTPLTVPSG 153

                         170       180
                  ....*....|....*....|....
gi 1110864165 205 ATDQVIVSVFAWAEEVSLSIPTAN 228
Cdd:cd00205   154 APTTVDITVYVRAGDFELYGPRPP 177
rhv_like cd00205
Picornavirus capsid protein domain_like. Picornaviruses are non-enveloped plus-strand ssRNA ...
 356-542 3.46e-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: 74.35  E-value: 3.46e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110864165 356 SIAQRESFLTQFGWAVADSAeTLLWNSEVSPVLWNELsgtndeLHMPACCFAALPFRRWRGTMKFRFQVVASSFHKGRLK 435
Cdd:cd00205     3 SFADRPTTVGTNNWNSSASG-TQLFQWKLSPALGFLL------LQNTPLGALLSYFTYWRGDLEVTVQFNGSKFHTGRLL 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110864165 436 ITYDP---SYPLTNEYN----TNYTYIIDLAKERDFTVAIgwghekslinhrnPIQSAIPYSTSALGADPGNYANGIISV 508
Cdd:cd00205    76 VAYVPpgaPAPTTGDTRwqatLNPHVIWDLGTNSSVTFVV-------------PYVSPTPYRSTRYDGYGPLNSFGTLVV 142

                         170       180       190
                  ....*....|....*....|....*....|....
gi 1110864165 509 YVVNDLTVPNSTAnNDIEVNVFVSAGdDFEVFDP 542
Cdd:cd00205   143 RVLTPLTVPSGAP-TTVDITVYVRAG-DFELYGP 174
Dicistro_VP4 pfam11492
Cricket paralysis virus, VP4; This is a family of minor capsid proteins, known as VP4, from ...
 247-297 8.02e-08

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: 49.52  E-value: 8.02e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1110864165 247 DEYGTGPISRPAGIVAKAAGALSNIPGIGMYARATAMAANAVSGIASMFGY 297
Cdd:pfam11492   3 DETGEGVISEPATTVARVAGRLSDIPVIGTYAKTTEWVAGKVGSIAKLFGY 53
Rhv pfam00073
picornavirus capsid protein; CAUTION: This alignment is very weak. It can not be generated by ...
 36-172 2.38e-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: 39.60  E-value: 2.38e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110864165  36 TVDSMPDPTFNIADTN-DADLGNffSRPVKIQSYSWATGTNLFETFnPWQDFFENTRVLNRITN-FNLLRCKLKVRIVLN 113
Cdd:pfam00073  15 NPLELAVENFLGRDAPvQPDVQG--ERFYTLDSTDWTSLSKGFFWW-KLPLALLSMGLLGRLLRyHTYYRGGLEVTVQFN 91

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1110864165 114 GNGFHYGRAIASYIPLHNLDafTKDRPFFIQdvvaASQRPHVYLDPTTSQGGTLTLPFV 172
Cdd:pfam00073  92 GSKFHQGKLLVAYVPPGAPP--PGSRDYLWQ----ATLNPHQFWNLGLNSSARLSVPYI 144
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options: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.
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