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Conserved domains on  [gi|2127009054|gb|UDN67685|]
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internal scaffolding protein [robinz microvirus RP_94]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Chlamy_scaf super family cl11513
Chlamydia-phage Chp2 scaffold (Chlamy_scaf); Members of this entry are encoded by genes in ...
 30-142 2.86e-19

Chlamydia-phage Chp2 scaffold (Chlamy_scaf); Members of this entry are encoded by genes in chlamydia-phage such as Chp2. These viruses have around eight genes and obligately infect intracellular bacterial pathogens of the genus Chlamydia. This protein is annotated as VP3 or structural protein (as if a protein of mature viral particles), however, it is displaced from procapsids as DNA is packaged, and therefore is more correctly described as a scaffolding protein.


The actual alignment was detected with superfamily member PHA00099:

Pssm-ID: 299756  Cd Length: 147  Bit Score: 78.85  E-value: 2.86e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2127009054  30 TGLLCDDGTRTQQQFAEECDINTIVERFGLTGELPQSAS-IPFNADFDESVDFRTCLDLMREAERTFMLYPAEIRARFQN 108
Cdd:PHA00099   11 VKLKFTQKSLTQQHNKDECDINNIVKKLNATGVLEHVERrQPRYGDCMSPMDYQEALNVVIEAQEAFDSLPAKIRERFGN 90

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2127009054 109 DPTRFVDFVSDPLNVSQVKEWGLGRAESPLPAPI 142
Cdd:PHA00099   91 DPEEMLDFLSDPENYDEAKALGLVYEDGPSGAPQ 124
 
Name Accession Description Interval E-value
PHA00099 PHA00099
minor capsid protein
 30-142 2.86e-19

minor capsid protein


Pssm-ID: 164781  Cd Length: 147  Bit Score: 78.85  E-value: 2.86e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2127009054  30 TGLLCDDGTRTQQQFAEECDINTIVERFGLTGELPQSAS-IPFNADFDESVDFRTCLDLMREAERTFMLYPAEIRARFQN 108
Cdd:PHA00099   11 VKLKFTQKSLTQQHNKDECDINNIVKKLNATGVLEHVERrQPRYGDCMSPMDYQEALNVVIEAQEAFDSLPAKIRERFGN 90

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2127009054 109 DPTRFVDFVSDPLNVSQVKEWGLGRAESPLPAPI 142
Cdd:PHA00099   91 DPEEMLDFLSDPENYDEAKALGLVYEDGPSGAPQ 124
Chlamy_scaf pfam09675
Chlamydia-phage Chp2 scaffold (Chlamy_scaf); Members of this entry are encoded by genes in ...
 50-135 3.83e-11

Chlamydia-phage Chp2 scaffold (Chlamy_scaf); Members of this entry are encoded by genes in chlamydia-phage such as Chp2. These viruses have around eight genes and obligately infect intracellular bacterial pathogens of the genus Chlamydia. This protein is annotated as VP3 or structural protein (as if a protein of mature viral particles), however, it is displaced from procapsids as DNA is packaged, and therefore is more correctly described as a scaffolding protein.


Pssm-ID: 286721  Cd Length: 109  Bit Score: 56.65  E-value: 3.83e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2127009054  50 INTIVERFGLTGELPQSASI-----PFNADFDESVDFRTCLDLMREAERTFMLYPAEIRARFQNDPTRFVDFVSDPLNVS 124
Cdd:pfam09675   1 IEFIVKKAIKNGQILHAFAGdarrqGEYGDCPSILDFQDALDIVAKAEEAFDELPAHIRKNFANSPHEFLQFLEDPANRD 80

                          90
                  ....*....|.
gi 2127009054 125 QVKEWGLGRAE 135
Cdd:pfam09675  81 EAEKLGLLDPE 91
 
Name Accession Description Interval E-value
PHA00099 PHA00099
minor capsid protein
 30-142 2.86e-19

minor capsid protein


Pssm-ID: 164781  Cd Length: 147  Bit Score: 78.85  E-value: 2.86e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2127009054  30 TGLLCDDGTRTQQQFAEECDINTIVERFGLTGELPQSAS-IPFNADFDESVDFRTCLDLMREAERTFMLYPAEIRARFQN 108
Cdd:PHA00099   11 VKLKFTQKSLTQQHNKDECDINNIVKKLNATGVLEHVERrQPRYGDCMSPMDYQEALNVVIEAQEAFDSLPAKIRERFGN 90

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2127009054 109 DPTRFVDFVSDPLNVSQVKEWGLGRAESPLPAPI 142
Cdd:PHA00099   91 DPEEMLDFLSDPENYDEAKALGLVYEDGPSGAPQ 124
Chlamy_scaf pfam09675
Chlamydia-phage Chp2 scaffold (Chlamy_scaf); Members of this entry are encoded by genes in ...
 50-135 3.83e-11

Chlamydia-phage Chp2 scaffold (Chlamy_scaf); Members of this entry are encoded by genes in chlamydia-phage such as Chp2. These viruses have around eight genes and obligately infect intracellular bacterial pathogens of the genus Chlamydia. This protein is annotated as VP3 or structural protein (as if a protein of mature viral particles), however, it is displaced from procapsids as DNA is packaged, and therefore is more correctly described as a scaffolding protein.


Pssm-ID: 286721  Cd Length: 109  Bit Score: 56.65  E-value: 3.83e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2127009054  50 INTIVERFGLTGELPQSASI-----PFNADFDESVDFRTCLDLMREAERTFMLYPAEIRARFQNDPTRFVDFVSDPLNVS 124
Cdd:pfam09675   1 IEFIVKKAIKNGQILHAFAGdarrqGEYGDCPSILDFQDALDIVAKAEEAFDELPAHIRKNFANSPHEFLQFLEDPANRD 80

                          90
                  ....*....|.
gi 2127009054 125 QVKEWGLGRAE 135
Cdd:pfam09675  81 EAEKLGLLDPE 91
 
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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