NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1101081735|gb|OIO41903|]
View 

hypothetical protein AUJ63_04620 [Candidatus Pacearchaeota archaeon CG1_02_35_32]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
Portal_Gp20 super family cl23948
Bacteriophage T4-like portal protein (Gp20); This family consists of several bacteriophage ...
 284-415 2.07e-04

Bacteriophage T4-like portal protein (Gp20); This family consists of several bacteriophage T4-like capsid assembly (or portal) proteins. The exact mechanism by which the double-stranded (ds) DNA bacteriophages incorporate the portal protein at a unique vertex of the icosahedral capsid is unknown. In phage T4, there is evidence that this vertex, constituted by 12 subunits of gp20, acts as an initiator for the assembly of the major capsid protein and the scaffolding proteins into a prolate icosahedron of precise dimensions. The regulation of portal protein gene expression is an important regulator of prohead assembly in bacteriophage T4.


The actual alignment was detected with superfamily member pfam07230:

Pssm-ID: 474100  Cd Length: 439  Bit Score: 43.72  E-value: 2.07e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1101081735 284 NMEDIKYQQSQLFGAGGVPLAIIPGQESSII---RDSSN---ESIKgFISWIQTCNKMIGAELKQsIFDLELLLNGINPE 357
Cdd:pfam07230 288 EIDDVRYFKKKLYRALRVPLSRLPDDESGGFnfgGSGTEitrDELK-FSKFIRRLQRRFSEIFLD-PLKTQLILKGIITE 365

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1101081735 358 SIDYNIIWGVKI---EDNKLVE--KAEIRAAKKDGL----------ISIETAMREYgIKDTDIEIERIKKDMA 415
Cdd:pfam07230 366 EEWEEIAENIKIdfnSDSYFAElkEAEILERRINTLsqaepyigkyFSKETIMKKI-LGMTDEEIKEEDKQIE 437
 
Name Accession Description Interval E-value
Portal_Gp20 pfam07230
Bacteriophage T4-like portal protein (Gp20); This family consists of several bacteriophage ...
 284-415 2.07e-04

Bacteriophage T4-like portal protein (Gp20); This family consists of several bacteriophage T4-like capsid assembly (or portal) proteins. The exact mechanism by which the double-stranded (ds) DNA bacteriophages incorporate the portal protein at a unique vertex of the icosahedral capsid is unknown. In phage T4, there is evidence that this vertex, constituted by 12 subunits of gp20, acts as an initiator for the assembly of the major capsid protein and the scaffolding proteins into a prolate icosahedron of precise dimensions. The regulation of portal protein gene expression is an important regulator of prohead assembly in bacteriophage T4.


Pssm-ID: 462120  Cd Length: 439  Bit Score: 43.72  E-value: 2.07e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1101081735 284 NMEDIKYQQSQLFGAGGVPLAIIPGQESSII---RDSSN---ESIKgFISWIQTCNKMIGAELKQsIFDLELLLNGINPE 357
Cdd:pfam07230 288 EIDDVRYFKKKLYRALRVPLSRLPDDESGGFnfgGSGTEitrDELK-FSKFIRRLQRRFSEIFLD-PLKTQLILKGIITE 365

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1101081735 358 SIDYNIIWGVKI---EDNKLVE--KAEIRAAKKDGL----------ISIETAMREYgIKDTDIEIERIKKDMA 415
Cdd:pfam07230 366 EEWEEIAENIKIdfnSDSYFAElkEAEILERRINTLsqaepyigkyFSKETIMKKI-LGMTDEEIKEEDKQIE 437
 
Name Accession Description Interval E-value
Portal_Gp20 pfam07230
Bacteriophage T4-like portal protein (Gp20); This family consists of several bacteriophage ...
 284-415 2.07e-04

Bacteriophage T4-like portal protein (Gp20); This family consists of several bacteriophage T4-like capsid assembly (or portal) proteins. The exact mechanism by which the double-stranded (ds) DNA bacteriophages incorporate the portal protein at a unique vertex of the icosahedral capsid is unknown. In phage T4, there is evidence that this vertex, constituted by 12 subunits of gp20, acts as an initiator for the assembly of the major capsid protein and the scaffolding proteins into a prolate icosahedron of precise dimensions. The regulation of portal protein gene expression is an important regulator of prohead assembly in bacteriophage T4.


Pssm-ID: 462120  Cd Length: 439  Bit Score: 43.72  E-value: 2.07e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1101081735 284 NMEDIKYQQSQLFGAGGVPLAIIPGQESSII---RDSSN---ESIKgFISWIQTCNKMIGAELKQsIFDLELLLNGINPE 357
Cdd:pfam07230 288 EIDDVRYFKKKLYRALRVPLSRLPDDESGGFnfgGSGTEitrDELK-FSKFIRRLQRRFSEIFLD-PLKTQLILKGIITE 365

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1101081735 358 SIDYNIIWGVKI---EDNKLVE--KAEIRAAKKDGL----------ISIETAMREYgIKDTDIEIERIKKDMA 415
Cdd:pfam07230 366 EEWEEIAENIKIdfnSDSYFAElkEAEILERRINTLsqaepyigkyFSKETIMKKI-LGMTDEEIKEEDKQIE 437
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH