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Conserved domains on  [gi|1962822101|ref|WP_202048451|]
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phage portal protein, partial [Citrobacter sp. RHBSTW-00509]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Phage_portal super family cl46435
Phage portal protein; Bacteriophage portal proteins form a dodecamer and is located at a ...
 2-63 1.95e-24

Phage portal protein; Bacteriophage portal proteins form a dodecamer and is located at a five-fold vertex of the viral capsid. The portal complex forms a channel through which the viral DNA is packaged into the capsid, and exits during infection. The portal protein is though to rotate during DNA packaging. Portal proteins from different phage show little sequence homology, so this family does not represent all portal proteins.


The actual alignment was detected with superfamily member COG4695:

Pssm-ID: 480775  Cd Length: 393  Bit Score: 93.85  E-value: 1.95e-24
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1962822101   2 KQGVYYAKFNAGALLRGDMKSRFEAYSTGINWGIYSPNDCRELEELNPRAGGDIYLTPMNMT 63
Cdd:COG4695   321 FERGLYLEFDVDALLRADSKTRAEAYAKAVQAGFLTPNEARALEGLPPIPGGDELLVPLNMT 382
 
Name Accession Description Interval E-value
BeeE COG4695
Phage portal protein BeeE [Mobilome: prophages, transposons];
2-63 1.95e-24

Phage portal protein BeeE [Mobilome: prophages, transposons];


Pssm-ID: 443730  Cd Length: 393  Bit Score: 93.85  E-value: 1.95e-24
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1962822101   2 KQGVYYAKFNAGALLRGDMKSRFEAYSTGINWGIYSPNDCRELEELNPRAGGDIYLTPMNMT 63
Cdd:COG4695   321 FERGLYLEFDVDALLRADSKTRAEAYAKAVQAGFLTPNEARALEGLPPIPGGDELLVPLNMT 382
Phage_portal pfam04860
Phage portal protein; Bacteriophage portal proteins form a dodecamer and is located at a ...
 6-45 4.44e-15

Phage portal protein; Bacteriophage portal proteins form a dodecamer and is located at a five-fold vertex of the viral capsid. The portal complex forms a channel through which the viral DNA is packaged into the capsid, and exits during infection. The portal protein is though to rotate during DNA packaging. Portal proteins from different phage show little sequence homology, so this family does not represent all portal proteins.


Pssm-ID: 461459  Cd Length: 281  Bit Score: 67.25  E-value: 4.44e-15
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1962822101   6 YYAKFNAGALLRGDMKSRFEAYSTGINWGIYSPNDCRELE 45
Cdd:pfam04860 241 YYIEFNLDGLLRGDRKTRAEAYAKAVQAGILTPNEVRALE 280
portal_HK97 TIGR01537
phage portal protein, HK97 family; This model represents one of several distantly related ...
 6-52 4.64e-09

phage portal protein, HK97 family; This model represents one of several distantly related families of phage portal protein. This protein forms a hole, or portal, that enables DNA passage during packaging and ejection. It also forms the junction between the phage head (capsid) and the tail proteins. It functions as a dodecamer of a single polypeptide of average mol. wt. of 40-90 KDa. [Mobile and extrachromosomal element functions, Prophage functions]


Pssm-ID: 273677  Cd Length: 342  Bit Score: 50.84  E-value: 4.64e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1962822101   6 YYAKFNAGALLRGDMKSRFEAYSTGINWGIYSPNDCRELEELNPRAG 52
Cdd:TIGR01537 296 YYIKFDVTSILRYDSKERAEAYDKGIQSGFLTINEVREREGLPPLPG 342
 
Name Accession Description Interval E-value
BeeE COG4695
Phage portal protein BeeE [Mobilome: prophages, transposons];
2-63 1.95e-24

Phage portal protein BeeE [Mobilome: prophages, transposons];


Pssm-ID: 443730  Cd Length: 393  Bit Score: 93.85  E-value: 1.95e-24
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1962822101   2 KQGVYYAKFNAGALLRGDMKSRFEAYSTGINWGIYSPNDCRELEELNPRAGGDIYLTPMNMT 63
Cdd:COG4695   321 FERGLYLEFDVDALLRADSKTRAEAYAKAVQAGFLTPNEARALEGLPPIPGGDELLVPLNMT 382
Phage_portal pfam04860
Phage portal protein; Bacteriophage portal proteins form a dodecamer and is located at a ...
 6-45 4.44e-15

Phage portal protein; Bacteriophage portal proteins form a dodecamer and is located at a five-fold vertex of the viral capsid. The portal complex forms a channel through which the viral DNA is packaged into the capsid, and exits during infection. The portal protein is though to rotate during DNA packaging. Portal proteins from different phage show little sequence homology, so this family does not represent all portal proteins.


Pssm-ID: 461459  Cd Length: 281  Bit Score: 67.25  E-value: 4.44e-15
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1962822101   6 YYAKFNAGALLRGDMKSRFEAYSTGINWGIYSPNDCRELE 45
Cdd:pfam04860 241 YYIEFNLDGLLRGDRKTRAEAYAKAVQAGILTPNEVRALE 280
portal_HK97 TIGR01537
phage portal protein, HK97 family; This model represents one of several distantly related ...
 6-52 4.64e-09

phage portal protein, HK97 family; This model represents one of several distantly related families of phage portal protein. This protein forms a hole, or portal, that enables DNA passage during packaging and ejection. It also forms the junction between the phage head (capsid) and the tail proteins. It functions as a dodecamer of a single polypeptide of average mol. wt. of 40-90 KDa. [Mobile and extrachromosomal element functions, Prophage functions]


Pssm-ID: 273677  Cd Length: 342  Bit Score: 50.84  E-value: 4.64e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1962822101   6 YYAKFNAGALLRGDMKSRFEAYSTGINWGIYSPNDCRELEELNPRAG 52
Cdd:TIGR01537 296 YYIKFDVTSILRYDSKERAEAYDKGIQSGFLTINEVREREGLPPLPG 342
 
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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