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Conserved domains on  [gi|1110867300|gb|APG78884|]
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hypothetical protein 2, partial [Wenzhou picorna-like virus 5]

Protein Classification

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 ...
 60-231 8.76e-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: 80.90  E-value: 8.76e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110867300  60 LANFFSRPIKI----SEQEWSTSVNLNYDIDP--WSLYFDNPRVANRLTNFNLLKANLKVKIVINGNGFQYGRMLVSYLP 133
Cdd:cd00205     1 VESFADRPTTVgtnnWNSSASGTQLFQWKLSPalGFLLLQNTPLGALLSYFTYWRGDLEVTVQFNGSKFHTGRLLVAYVP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110867300 134 FDVYDTLSSnaalvrQDLVQASQQPHVFLNPTVSTGGELKLPMFNYQNYIEIPESQWSE---MGRLYFRTLNTLKHANGA 210
Cdd:cd00205    81 PGAPAPTTG------DTRWQATLNPHVIWDLGTNSSVTFVVPYVSPTPYRSTRYDGYGPlnsFGTLVVRVLTPLTVPSGA 154

                         170       180
                  ....*....|....*....|.
gi 1110867300 211 TDVVTITTFAWAEDVSMSVLT 231
Cdd:cd00205   155 PTTVDITVYVRAGDFELYGPR 175
Dicistro_VP4 pfam11492
Cricket paralysis virus, VP4; This is a family of minor capsid proteins, known as VP4, from ...
 252-297 1.60e-13

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: 64.93  E-value: 1.60e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1110867300 252 GMISGPATSVAKFAAYLKGVPYIGPFATATEIGAGAVAGMAKIFGY 297
Cdd:pfam11492   8 GVISEPATTVARVAGRLSDIPVIGTYAKTTEWVAGKVGSIAKLFGY 53
rhv_like super family cl13999
Picornavirus capsid protein domain_like. Picornaviruses are non-enveloped plus-strand ssRNA ...
 356-440 1.78e-06

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


The actual alignment was detected with superfamily member cd00205:

Pssm-ID: 417456  Cd Length: 178  Bit Score: 48.16  E-value: 1.78e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110867300 356 EIAKRESYLTTFSWNiGTAPDTLLWNARVDPCTWaentgpPVSYHFPACCMAALPFQFWKGSMKFRFQIVCSSFHKGRLK 435
Cdd:cd00205     3 SFADRPTTVGTNNWN-SSASGTQLFQWKLSPALG------FLLLQNTPLGALLSYFTYWRGDLEVTVQFNGSKFHTGRLL 75


                  ....*
gi 1110867300 436 IVYDP 440
Cdd:cd00205    76 VAYVP 80
 
Name Accession Description Interval E-value
rhv_like cd00205
Picornavirus capsid protein domain_like. Picornaviruses are non-enveloped plus-strand ssRNA ...
 60-231 8.76e-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: 80.90  E-value: 8.76e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110867300  60 LANFFSRPIKI----SEQEWSTSVNLNYDIDP--WSLYFDNPRVANRLTNFNLLKANLKVKIVINGNGFQYGRMLVSYLP 133
Cdd:cd00205     1 VESFADRPTTVgtnnWNSSASGTQLFQWKLSPalGFLLLQNTPLGALLSYFTYWRGDLEVTVQFNGSKFHTGRLLVAYVP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110867300 134 FDVYDTLSSnaalvrQDLVQASQQPHVFLNPTVSTGGELKLPMFNYQNYIEIPESQWSE---MGRLYFRTLNTLKHANGA 210
Cdd:cd00205    81 PGAPAPTTG------DTRWQATLNPHVIWDLGTNSSVTFVVPYVSPTPYRSTRYDGYGPlnsFGTLVVRVLTPLTVPSGA 154

                         170       180
                  ....*....|....*....|.
gi 1110867300 211 TDVVTITTFAWAEDVSMSVLT 231
Cdd:cd00205   155 PTTVDITVYVRAGDFELYGPR 175
Dicistro_VP4 pfam11492
Cricket paralysis virus, VP4; This is a family of minor capsid proteins, known as VP4, from ...
 252-297 1.60e-13

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: 64.93  E-value: 1.60e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1110867300 252 GMISGPATSVAKFAAYLKGVPYIGPFATATEIGAGAVAGMAKIFGY 297
Cdd:pfam11492   8 GVISEPATTVARVAGRLSDIPVIGTYAKTTEWVAGKVGSIAKLFGY 53
rhv_like cd00205
Picornavirus capsid protein domain_like. Picornaviruses are non-enveloped plus-strand ssRNA ...
 356-440 1.78e-06

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: 48.16  E-value: 1.78e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110867300 356 EIAKRESYLTTFSWNiGTAPDTLLWNARVDPCTWaentgpPVSYHFPACCMAALPFQFWKGSMKFRFQIVCSSFHKGRLK 435
Cdd:cd00205     3 SFADRPTTVGTNNWN-SSASGTQLFQWKLSPALG------FLLLQNTPLGALLSYFTYWRGDLEVTVQFNGSKFHTGRLL 75


                  ....*
gi 1110867300 436 IVYDP 440
Cdd:cd00205    76 VAYVP 80
 
Name Accession Description Interval E-value
rhv_like cd00205
Picornavirus capsid protein domain_like. Picornaviruses are non-enveloped plus-strand ssRNA ...
 60-231 8.76e-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: 80.90  E-value: 8.76e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110867300  60 LANFFSRPIKI----SEQEWSTSVNLNYDIDP--WSLYFDNPRVANRLTNFNLLKANLKVKIVINGNGFQYGRMLVSYLP 133
Cdd:cd00205     1 VESFADRPTTVgtnnWNSSASGTQLFQWKLSPalGFLLLQNTPLGALLSYFTYWRGDLEVTVQFNGSKFHTGRLLVAYVP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110867300 134 FDVYDTLSSnaalvrQDLVQASQQPHVFLNPTVSTGGELKLPMFNYQNYIEIPESQWSE---MGRLYFRTLNTLKHANGA 210
Cdd:cd00205    81 PGAPAPTTG------DTRWQATLNPHVIWDLGTNSSVTFVVPYVSPTPYRSTRYDGYGPlnsFGTLVVRVLTPLTVPSGA 154

                         170       180
                  ....*....|....*....|.
gi 1110867300 211 TDVVTITTFAWAEDVSMSVLT 231
Cdd:cd00205   155 PTTVDITVYVRAGDFELYGPR 175
Dicistro_VP4 pfam11492
Cricket paralysis virus, VP4; This is a family of minor capsid proteins, known as VP4, from ...
 252-297 1.60e-13

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: 64.93  E-value: 1.60e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1110867300 252 GMISGPATSVAKFAAYLKGVPYIGPFATATEIGAGAVAGMAKIFGY 297
Cdd:pfam11492   8 GVISEPATTVARVAGRLSDIPVIGTYAKTTEWVAGKVGSIAKLFGY 53
rhv_like cd00205
Picornavirus capsid protein domain_like. Picornaviruses are non-enveloped plus-strand ssRNA ...
 356-440 1.78e-06

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: 48.16  E-value: 1.78e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1110867300 356 EIAKRESYLTTFSWNiGTAPDTLLWNARVDPCTWaentgpPVSYHFPACCMAALPFQFWKGSMKFRFQIVCSSFHKGRLK 435
Cdd:cd00205     3 SFADRPTTVGTNNWN-SSASGTQLFQWKLSPALG------FLLLQNTPLGALLSYFTYWRGDLEVTVQFNGSKFHTGRLL 75


                  ....*
gi 1110867300 436 IVYDP 440
Cdd:cd00205    76 VAYVP 80
 
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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