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Conserved domains on  [gi|517906054|ref|WP_019076262|]
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MULTISPECIES: type VI secretion system tube protein TssD [Citrobacter]

Protein Classification

Hcp family type VI secretion system effector( domain architecture ID 10006986)

Hcp family type VI secretion system effector acts as a virulence factor, as a transporter of effectors and as a chaperone; it may aggregate into a needle-like shaft that can penetrate other bacteria via a puncturing protein attached to its head

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Hcp COG3157
Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, ...
 1-154 4.64e-48

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


:

Pssm-ID: 442391  Cd Length: 162  Bit Score: 152.72  E-value: 4.64e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 517906054   1 MSNPAYLWLVDtngspLVGSSLVSDRVGAIEIKSLTHNVNIPTDGNT----GRLTGTRIHAPIQFQKEFDRVTPLLYKAQ 76
Cdd:COG3157    1 MAVDAYLKIDG-----IKGESTDKGHEGWIEVLSFSHGVSQPTDGTTssggGRGAGKRSHSDLTFTKEIDKASPLLYKAC 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 517906054  77 SEGATLKCATIKMYTlTEAGMEKEYFNIILNNVKITSITADLYPGAstGTHLETILLRYESITWKHC----DGNIIY--T 150
Cdd:COG3157   76 ASGKHLKKAELKFYR-ANGGKEEEYLTITLENVIISSVSPSGSGGE--GTPLETVSLSYAKITWTYTpqdaDGGIGGevT 152


                 ....
gi 517906054 151 DAWN 154
Cdd:COG3157  153 DGWD 156
 
Name Accession Description Interval E-value
Hcp COG3157
Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, ...
 1-154 4.64e-48

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


Pssm-ID: 442391  Cd Length: 162  Bit Score: 152.72  E-value: 4.64e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 517906054   1 MSNPAYLWLVDtngspLVGSSLVSDRVGAIEIKSLTHNVNIPTDGNT----GRLTGTRIHAPIQFQKEFDRVTPLLYKAQ 76
Cdd:COG3157    1 MAVDAYLKIDG-----IKGESTDKGHEGWIEVLSFSHGVSQPTDGTTssggGRGAGKRSHSDLTFTKEIDKASPLLYKAC 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 517906054  77 SEGATLKCATIKMYTlTEAGMEKEYFNIILNNVKITSITADLYPGAstGTHLETILLRYESITWKHC----DGNIIY--T 150
Cdd:COG3157   76 ASGKHLKKAELKFYR-ANGGKEEEYLTITLENVIISSVSPSGSGGE--GTPLETVSLSYAKITWTYTpqdaDGGIGGevT 152


                 ....
gi 517906054 151 DAWN 154
Cdd:COG3157  153 DGWD 156
VI_effect_Hcp1 TIGR03344
type VI secretion system effector, Hcp1 family; This family includes Hcp1 (hemolysin ...
 3-156 1.67e-39

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: 131.30  E-value: 1.67e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 517906054    3 NPAYLWLVDTNGS---------PLVGSSLVSDRVGAIEIKSLTHNVNIPTDGNTGRLTGTRIHAPIQFQKEFDRVTPLLY 73
Cdd:TIGR03344   2 NPIYLTITGKTQGlisagcstaDSIGNKYQEGHEDEIMVLAFDHSISRPQNPQSGLPTGRVVHQPIVITKPIDKSSPLLY 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 517906054   74 KAQSEGATLKCATIKMYTLTEAGMEKEYFNIILNNVKITSITaDLYPGAST---GTHLETILLRYESITWKHCDGNIIYT 150
Cdd:TIGR03344  82 QALSSGEKLEECEIKFYRTSAAGKQELYYTIKLEGALIVDIK-PYMPHCLDpnnAQPLEDVSFRYRKITWTHHIAGTSGY 160


                  ....*.
gi 517906054  151 DAWNQR 156
Cdd:TIGR03344 161 SSWTEP 166
T6SS_HCP pfam05638
Type VI secretion system effector, Hcp; HCP is a family of proteins which are expressed in up ...
 6-142 4.77e-37

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: 123.79  E-value: 4.77e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 517906054    6 YLWLVDtngspLVGSSLVSDRVGAIEIKSLTHNVNIPTDGNTGRLTGTRI----HAPIQFQKEFDRVTPLLYKAQSEGAT 81
Cdd:pfam05638   1 YLKIDG-----IKGESTDAGHEDWIEVLSFSHGVSQPTDSNTGSGTGRRAgkvsHSPLTFTKEIDKASPLLYKACATGEH 75

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 517906054   82 LKCATIKMYTlTEAGMEKEYFNIILNNVKITSITadlypgASTGTHLETILLRYESITWKH 142
Cdd:pfam05638  76 LKTVELTFYR-ASGGKEEEYLTITLEDVIISSVS------PSGMRPTESVSLSYAKITWTY 129
 
Name Accession Description Interval E-value
Hcp COG3157
Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, ...
 1-154 4.64e-48

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


Pssm-ID: 442391  Cd Length: 162  Bit Score: 152.72  E-value: 4.64e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 517906054   1 MSNPAYLWLVDtngspLVGSSLVSDRVGAIEIKSLTHNVNIPTDGNT----GRLTGTRIHAPIQFQKEFDRVTPLLYKAQ 76
Cdd:COG3157    1 MAVDAYLKIDG-----IKGESTDKGHEGWIEVLSFSHGVSQPTDGTTssggGRGAGKRSHSDLTFTKEIDKASPLLYKAC 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 517906054  77 SEGATLKCATIKMYTlTEAGMEKEYFNIILNNVKITSITADLYPGAstGTHLETILLRYESITWKHC----DGNIIY--T 150
Cdd:COG3157   76 ASGKHLKKAELKFYR-ANGGKEEEYLTITLENVIISSVSPSGSGGE--GTPLETVSLSYAKITWTYTpqdaDGGIGGevT 152


                 ....
gi 517906054 151 DAWN 154
Cdd:COG3157  153 DGWD 156
VI_effect_Hcp1 TIGR03344
type VI secretion system effector, Hcp1 family; This family includes Hcp1 (hemolysin ...
 3-156 1.67e-39

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: 131.30  E-value: 1.67e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 517906054    3 NPAYLWLVDTNGS---------PLVGSSLVSDRVGAIEIKSLTHNVNIPTDGNTGRLTGTRIHAPIQFQKEFDRVTPLLY 73
Cdd:TIGR03344   2 NPIYLTITGKTQGlisagcstaDSIGNKYQEGHEDEIMVLAFDHSISRPQNPQSGLPTGRVVHQPIVITKPIDKSSPLLY 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 517906054   74 KAQSEGATLKCATIKMYTLTEAGMEKEYFNIILNNVKITSITaDLYPGAST---GTHLETILLRYESITWKHCDGNIIYT 150
Cdd:TIGR03344  82 QALSSGEKLEECEIKFYRTSAAGKQELYYTIKLEGALIVDIK-PYMPHCLDpnnAQPLEDVSFRYRKITWTHHIAGTSGY 160


                  ....*.
gi 517906054  151 DAWNQR 156
Cdd:TIGR03344 161 SSWTEP 166
T6SS_HCP pfam05638
Type VI secretion system effector, Hcp; HCP is a family of proteins which are expressed in up ...
 6-142 4.77e-37

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: 123.79  E-value: 4.77e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 517906054    6 YLWLVDtngspLVGSSLVSDRVGAIEIKSLTHNVNIPTDGNTGRLTGTRI----HAPIQFQKEFDRVTPLLYKAQSEGAT 81
Cdd:pfam05638   1 YLKIDG-----IKGESTDAGHEDWIEVLSFSHGVSQPTDSNTGSGTGRRAgkvsHSPLTFTKEIDKASPLLYKACATGEH 75

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 517906054   82 LKCATIKMYTlTEAGMEKEYFNIILNNVKITSITadlypgASTGTHLETILLRYESITWKH 142
Cdd:pfam05638  76 LKTVELTFYR-ASGGKEEEYLTITLEDVIISSVS------PSGMRPTESVSLSYAKITWTY 129
 
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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