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Conserved domains on  [gi|1372434458|gb|PSU97825|]
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type VI secretion system tube protein Hcp, partial [Photobacterium kishitanii]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
T6SS_HCP super family cl01226
Type VI secretion system effector, Hcp; HCP is a family of proteins which are expressed in up ...
 1-93 1.91e-40

Type VI secretion system effector, Hcp; HCP is a family of proteins which are expressed in up to 1000 copies in Gram-negative bacteria. Together these copies aggregate into a needle-like shaft or tube that will penetrate other bacteria via a puncturing protein attached to its head. Initially Hcp forms a hexameric structure with a central channel of 40 Angstroms. These hexamers pile up one on top of each other forming nanotubes resembling the gp19 tail phage tube.


The actual alignment was detected with superfamily member TIGR03344:

Pssm-ID: 470123  Cd Length: 166  Bit Score: 131.69  E-value: 1.91e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1372434458   1 EFKHVVTVPTDPQSGQPAGQRVHKPFKFTVAFH---PMLmYNSLASGEMLPTVELKWYRTSVEGKQEHYFTTTLTDATIV 77
Cdd:TIGR03344  42 AFDHSISRPQNPQSGLPTGRVVHQPIVITKPIDkssPLL-YQALSSGEKLEECEIKFYRTSAAGKQELYYTIKLEGALIV 120

                          90
                  ....*....|....*.
gi 1372434458  78 NIDNQMPHCQDSTKAD 93
Cdd:TIGR03344 121 DIKPYMPHCLDPNNAQ 136
 
Name Accession Description Interval E-value
VI_effect_Hcp1 TIGR03344
type VI secretion system effector, Hcp1 family; This family includes Hcp1 (hemolysin ...
 1-93 1.91e-40

type VI secretion system effector, Hcp1 family; This family includes Hcp1 (hemolysin coregulated protein 1), an exported, homohexameric ring-forming virulence protein from Pseudomonas aeruginosa. Hcp1 lacks a conventional signal sequence and is instead exported by means of the type VI secretion system, encoded by a pathogenicity cluster of a class previously designated IAHP (IcmF-associated homologous protein). Homologs of Hcp1, in this protein family, are found in various bacteria of which most but not all are known pathogens. Pathogens may have many multiple members of this family, with three to ten in Erwinia carotovora, Yersinia pestis, uropathogenic Escherichia coli, and the insect pathogen Photorhabdus luminescens. [Cellular processes, Pathogenesis]


Pssm-ID: 213799  Cd Length: 166  Bit Score: 131.69  E-value: 1.91e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1372434458   1 EFKHVVTVPTDPQSGQPAGQRVHKPFKFTVAFH---PMLmYNSLASGEMLPTVELKWYRTSVEGKQEHYFTTTLTDATIV 77
Cdd:TIGR03344  42 AFDHSISRPQNPQSGLPTGRVVHQPIVITKPIDkssPLL-YQALSSGEKLEECEIKFYRTSAAGKQELYYTIKLEGALIV 120

                          90
                  ....*....|....*.
gi 1372434458  78 NIDNQMPHCQDSTKAD 93
Cdd:TIGR03344 121 DIKPYMPHCLDPNNAQ 136
Hcp COG3157
Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, ...
 2-85 1.25e-23

Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 442391  Cd Length: 162  Bit Score: 88.77  E-value: 1.25e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1372434458   2 FKHVVTVPTDPQS----GQPAGQRVHKPFKFTVAFH---PmLMYNSLASGEMLPTVELKWYRTSvEGKQEHYFTTTLTDA 74
Cdd:COG3157    30 FSHGVSQPTDGTTssggGRGAGKRSHSDLTFTKEIDkasP-LLYKACASGKHLKKAELKFYRAN-GGKEEEYLTITLENV 107

                          90
                  ....*....|.
gi 1372434458  75 TIVNIDNQMPH 85
Cdd:COG3157   108 IISSVSPSGSG 118
T6SS_HCP pfam05638
Type VI secretion system effector, Hcp; HCP is a family of proteins which are expressed in up ...
 2-80 1.24e-22

Type VI secretion system effector, Hcp; HCP is a family of proteins which are expressed in up to 1000 copies in Gram-negative bacteria. Together these copies aggregate into a needle-like shaft or tube that will penetrate other bacteria via a puncturing protein attached to its head. Initially Hcp forms a hexameric structure with a central channel of 40 Angstroms. These hexamers pile up one on top of each other forming nanotubes resembling the gp19 tail phage tube.


Pssm-ID: 428557  Cd Length: 129  Bit Score: 85.27  E-value: 1.24e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1372434458   2 FKHVVTVPTDPQSGQPAGQR----VHKPFKFTvafHPM-----LMYNSLASGEMLPTVELKWYRTSvEGKQEHYFTTTLT 72
Cdd:pfam05638  25 FSHGVSQPTDSNTGSGTGRRagkvSHSPLTFT---KEIdkaspLLYKACATGEHLKTVELTFYRAS-GGKEEEYLTITLE 100


                  ....*...
gi 1372434458  73 DATIVNID 80
Cdd:pfam05638 101 DVIISSVS 108
 
Name Accession Description Interval E-value
VI_effect_Hcp1 TIGR03344
type VI secretion system effector, Hcp1 family; This family includes Hcp1 (hemolysin ...
 1-93 1.91e-40

type VI secretion system effector, Hcp1 family; This family includes Hcp1 (hemolysin coregulated protein 1), an exported, homohexameric ring-forming virulence protein from Pseudomonas aeruginosa. Hcp1 lacks a conventional signal sequence and is instead exported by means of the type VI secretion system, encoded by a pathogenicity cluster of a class previously designated IAHP (IcmF-associated homologous protein). Homologs of Hcp1, in this protein family, are found in various bacteria of which most but not all are known pathogens. Pathogens may have many multiple members of this family, with three to ten in Erwinia carotovora, Yersinia pestis, uropathogenic Escherichia coli, and the insect pathogen Photorhabdus luminescens. [Cellular processes, Pathogenesis]


Pssm-ID: 213799  Cd Length: 166  Bit Score: 131.69  E-value: 1.91e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1372434458   1 EFKHVVTVPTDPQSGQPAGQRVHKPFKFTVAFH---PMLmYNSLASGEMLPTVELKWYRTSVEGKQEHYFTTTLTDATIV 77
Cdd:TIGR03344  42 AFDHSISRPQNPQSGLPTGRVVHQPIVITKPIDkssPLL-YQALSSGEKLEECEIKFYRTSAAGKQELYYTIKLEGALIV 120

                          90
                  ....*....|....*.
gi 1372434458  78 NIDNQMPHCQDSTKAD 93
Cdd:TIGR03344 121 DIKPYMPHCLDPNNAQ 136
Hcp COG3157
Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, ...
 2-85 1.25e-23

Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 442391  Cd Length: 162  Bit Score: 88.77  E-value: 1.25e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1372434458   2 FKHVVTVPTDPQS----GQPAGQRVHKPFKFTVAFH---PmLMYNSLASGEMLPTVELKWYRTSvEGKQEHYFTTTLTDA 74
Cdd:COG3157    30 FSHGVSQPTDGTTssggGRGAGKRSHSDLTFTKEIDkasP-LLYKACASGKHLKKAELKFYRAN-GGKEEEYLTITLENV 107

                          90
                  ....*....|.
gi 1372434458  75 TIVNIDNQMPH 85
Cdd:COG3157   108 IISSVSPSGSG 118
T6SS_HCP pfam05638
Type VI secretion system effector, Hcp; HCP is a family of proteins which are expressed in up ...
 2-80 1.24e-22

Type VI secretion system effector, Hcp; HCP is a family of proteins which are expressed in up to 1000 copies in Gram-negative bacteria. Together these copies aggregate into a needle-like shaft or tube that will penetrate other bacteria via a puncturing protein attached to its head. Initially Hcp forms a hexameric structure with a central channel of 40 Angstroms. These hexamers pile up one on top of each other forming nanotubes resembling the gp19 tail phage tube.


Pssm-ID: 428557  Cd Length: 129  Bit Score: 85.27  E-value: 1.24e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1372434458   2 FKHVVTVPTDPQSGQPAGQR----VHKPFKFTvafHPM-----LMYNSLASGEMLPTVELKWYRTSvEGKQEHYFTTTLT 72
Cdd:pfam05638  25 FSHGVSQPTDSNTGSGTGRRagkvSHSPLTFT---KEIdkaspLLYKACATGEHLKTVELTFYRAS-GGKEEEYLTITLE 100


                  ....*...
gi 1372434458  73 DATIVNID 80
Cdd:pfam05638 101 DVIISSVS 108
 
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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