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Conserved domains on  [gi|1729404687|gb|TXZ52469|]
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type VI secretion system baseplate subunit TssE [Vibrio cholerae]

Protein Classification

type VI secretion system baseplate subunit TssE( domain architecture ID 10022389)

type VI secretion system (T6SS) baseplate subunit TssE is a component of the T6SS baseplate that serves not only as the tail assembly platform, but also docks the tail to the membrane complex

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
VI_zyme TIGR03357
type VI secretion system lysozyme-like protein; The description for Pfam family pfam04965 ...
 12-144 2.17e-54

type VI secretion system lysozyme-like protein; The description for Pfam family pfam04965 cites acidic lysozyme activity for some phage-encoded members. This family represents a different subgroup of the proteins from pfam04965, where all members are associated with bacterial type VI secretion system genomic contexts.


:

Pssm-ID: 274540  Cd Length: 133  Bit Score: 167.40  E-value: 2.17e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1729404687  12 GVGFFERLEANAKPMSLTRGPDAWDVLESIKRNVSNILNTRIGGAQSAPHLGLVDFNDATLETLDLSVRIKLAIQQCLER 91
Cdd:TIGR03357   1 TPSLFERLPDASGESPSTRRSSAEQLRESIRRHLERLLNTRRGSCASLPDYGLPDLNDLSLSSADDRRRIRRAIEQAIER 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1729404687  92 YEPRLTRVLVRADQDSFNPLTLRFHITATINSEALHEKVQFSLLLDQSRKYRV 144
Cdd:TIGR03357  81 YEPRLSRVRVTALPDEEDPLALRFRIEAELDVDGGPEPVSFDALLDPSGRYRV 133
 
Name Accession Description Interval E-value
VI_zyme TIGR03357
type VI secretion system lysozyme-like protein; The description for Pfam family pfam04965 ...
 12-144 2.17e-54

type VI secretion system lysozyme-like protein; The description for Pfam family pfam04965 cites acidic lysozyme activity for some phage-encoded members. This family represents a different subgroup of the proteins from pfam04965, where all members are associated with bacterial type VI secretion system genomic contexts.


Pssm-ID: 274540  Cd Length: 133  Bit Score: 167.40  E-value: 2.17e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1729404687  12 GVGFFERLEANAKPMSLTRGPDAWDVLESIKRNVSNILNTRIGGAQSAPHLGLVDFNDATLETLDLSVRIKLAIQQCLER 91
Cdd:TIGR03357   1 TPSLFERLPDASGESPSTRRSSAEQLRESIRRHLERLLNTRRGSCASLPDYGLPDLNDLSLSSADDRRRIRRAIEQAIER 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1729404687  92 YEPRLTRVLVRADQDSFNPLTLRFHITATINSEALHEKVQFSLLLDQSRKYRV 144
Cdd:TIGR03357  81 YEPRLSRVRVTALPDEEDPLALRFRIEAELDVDGGPEPVSFDALLDPSGRYRV 133
COG3518 COG3518
Predicted component of the type VI protein secretion system [Intracellular trafficking, ...
 1-144 2.02e-29

Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 442740  Cd Length: 162  Bit Score: 104.67  E-value: 2.02e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1729404687   1 MTYIAPEESaFGVGFFERLEANA----KPMSLTRGPDAWDVLESIKRNVSNILNTRIGGA----------QSAPHLGLVD 66
Cdd:COG3518     1 MARLRPRRR-LQPSLLDRLTDDEpdrsRESPLSRVVSLEQLRESVRRDLEWLLNTRRGEAsllaaypevrRSVLNYGLPD 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1729404687  67 FNDATLETLDLSVRIKLAIQQCLERYEPRLTRVLVR-ADQDSFNPLTLRFHITATINSEALHEKVQFSLLLD-QSRKYRV 144
Cdd:COG3518    80 LSGASLGSPDDREAIERAIRQAILRFEPRLRRVSVTvLPDDDDSPNTLRFRIEAVLWADPAPEPVRFDTVLDlETGRVSV 159
GPW_gp25 pfam04965
Baseplate wedge protein gp25; This family represents T4 phage gp25 protein and gp25-like ...
 36-124 1.21e-21

Baseplate wedge protein gp25; This family represents T4 phage gp25 protein and gp25-like proteins, found in several systems, including contractile tail bacteriophages, the type VI secretion system (T6SS) and R-type pyocins, which constitute a multiprotein tubular apparatus to attach to and penetrate host cell membranes. Gp25 is a component of the conserved wedge in the inner part of the baseplate and serves as a nucleus for sheath polymerization, playing a critical role in sheath assembly and contraction. The EPR motif (Glu-Pro-Arg, residues 85-87 of gp25) is conserved across all members of the family including orthologs from the RpoS-mediated general stress response system (called IraD). This motif interacts with the 'core bundle' composed of orthologs of T4 gp6 and gp7 proteins in contractile injection systems.


Pssm-ID: 428225  Cd Length: 93  Bit Score: 82.63  E-value: 1.21e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1729404687  36 DVLESIKRNVSNILNTRIGGAQSAPHLGLVDFNDATLETLD-LSVRIKLAIQQCLERYEPRLTRVLVRADQDSFNPLTLR 114
Cdd:pfam04965   2 SLRESVRRDLEILLNTRPGERVSRPNYGCPDLALLFAPNDDaTRALIERAIREAILRFEPRIRVVSVEVDPDPDSPGTLR 81

                          90
                  ....*....|
gi 1729404687 115 FHITATINSE 124
Cdd:pfam04965  82 FTIEYTLRAT 91
25 PHA00415
baseplate wedge subunit
 24-134 6.16e-05

baseplate wedge subunit


Pssm-ID: 222788  Cd Length: 131  Bit Score: 40.37  E-value: 6.16e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1729404687  24 KPMSLTRGPDAW--DV-----LESIKRNVSNILNTRIGGAQSAPHLGlVDFNDATLETLD-LSV-RIKLAIQQCLERYEP 94
Cdd:PHA00415    9 SDIDPNFKKSPWnkDVsavkgARAIKNSLLGIVTTRKGERPFDPNFG-CDISDQLFENMDpLTAdTIERNIESAIRNYEP 87

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1729404687  95 R--LTRVLVRADQD--SFNpLTLRFHItatINSEALHEKVQFSL 134
Cdd:PHA00415   88 RvyNLNVEVIPVYDdnSII-VTIYFSI---IDNPDDLEQIKFQL 127
 
Name Accession Description Interval E-value
VI_zyme TIGR03357
type VI secretion system lysozyme-like protein; The description for Pfam family pfam04965 ...
 12-144 2.17e-54

type VI secretion system lysozyme-like protein; The description for Pfam family pfam04965 cites acidic lysozyme activity for some phage-encoded members. This family represents a different subgroup of the proteins from pfam04965, where all members are associated with bacterial type VI secretion system genomic contexts.


Pssm-ID: 274540  Cd Length: 133  Bit Score: 167.40  E-value: 2.17e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1729404687  12 GVGFFERLEANAKPMSLTRGPDAWDVLESIKRNVSNILNTRIGGAQSAPHLGLVDFNDATLETLDLSVRIKLAIQQCLER 91
Cdd:TIGR03357   1 TPSLFERLPDASGESPSTRRSSAEQLRESIRRHLERLLNTRRGSCASLPDYGLPDLNDLSLSSADDRRRIRRAIEQAIER 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1729404687  92 YEPRLTRVLVRADQDSFNPLTLRFHITATINSEALHEKVQFSLLLDQSRKYRV 144
Cdd:TIGR03357  81 YEPRLSRVRVTALPDEEDPLALRFRIEAELDVDGGPEPVSFDALLDPSGRYRV 133
COG3518 COG3518
Predicted component of the type VI protein secretion system [Intracellular trafficking, ...
 1-144 2.02e-29

Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 442740  Cd Length: 162  Bit Score: 104.67  E-value: 2.02e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1729404687   1 MTYIAPEESaFGVGFFERLEANA----KPMSLTRGPDAWDVLESIKRNVSNILNTRIGGA----------QSAPHLGLVD 66
Cdd:COG3518     1 MARLRPRRR-LQPSLLDRLTDDEpdrsRESPLSRVVSLEQLRESVRRDLEWLLNTRRGEAsllaaypevrRSVLNYGLPD 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1729404687  67 FNDATLETLDLSVRIKLAIQQCLERYEPRLTRVLVR-ADQDSFNPLTLRFHITATINSEALHEKVQFSLLLD-QSRKYRV 144
Cdd:COG3518    80 LSGASLGSPDDREAIERAIRQAILRFEPRLRRVSVTvLPDDDDSPNTLRFRIEAVLWADPAPEPVRFDTVLDlETGRVSV 159
GPW_gp25 pfam04965
Baseplate wedge protein gp25; This family represents T4 phage gp25 protein and gp25-like ...
 36-124 1.21e-21

Baseplate wedge protein gp25; This family represents T4 phage gp25 protein and gp25-like proteins, found in several systems, including contractile tail bacteriophages, the type VI secretion system (T6SS) and R-type pyocins, which constitute a multiprotein tubular apparatus to attach to and penetrate host cell membranes. Gp25 is a component of the conserved wedge in the inner part of the baseplate and serves as a nucleus for sheath polymerization, playing a critical role in sheath assembly and contraction. The EPR motif (Glu-Pro-Arg, residues 85-87 of gp25) is conserved across all members of the family including orthologs from the RpoS-mediated general stress response system (called IraD). This motif interacts with the 'core bundle' composed of orthologs of T4 gp6 and gp7 proteins in contractile injection systems.


Pssm-ID: 428225  Cd Length: 93  Bit Score: 82.63  E-value: 1.21e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1729404687  36 DVLESIKRNVSNILNTRIGGAQSAPHLGLVDFNDATLETLD-LSVRIKLAIQQCLERYEPRLTRVLVRADQDSFNPLTLR 114
Cdd:pfam04965   2 SLRESVRRDLEILLNTRPGERVSRPNYGCPDLALLFAPNDDaTRALIERAIREAILRFEPRIRVVSVEVDPDPDSPGTLR 81

                          90
                  ....*....|
gi 1729404687 115 FHITATINSE 124
Cdd:pfam04965  82 FTIEYTLRAT 91
COG3628 COG3628
Phage baseplate assembly protein W [Mobilome: prophages, transposons];
38-123 7.54e-06

Phage baseplate assembly protein W [Mobilome: prophages, transposons];


Pssm-ID: 442846  Cd Length: 119  Bit Score: 42.55  E-value: 7.54e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1729404687  38 LESIKRNVSNILNTRIGgaqSAPHL-----GLVDFNDATLeTLDLSVRIKLAIQQCLERYEPRLTRVLVRADQDSFNPLT 112
Cdd:COG3628    19 EEHIRQSIRIILTTPPG---ERVMRpdfgsGLHDLLFEPN-NPATALLIRAAVAEALLRWEPRIEVESVDVTPDPEEDGK 94

                          90
                  ....*....|.
gi 1729404687 113 LRFHITATINS 123
Cdd:COG3628    95 LLITIDYTVRA 105
25 PHA00415
baseplate wedge subunit
 24-134 6.16e-05

baseplate wedge subunit


Pssm-ID: 222788  Cd Length: 131  Bit Score: 40.37  E-value: 6.16e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1729404687  24 KPMSLTRGPDAW--DV-----LESIKRNVSNILNTRIGGAQSAPHLGlVDFNDATLETLD-LSV-RIKLAIQQCLERYEP 94
Cdd:PHA00415    9 SDIDPNFKKSPWnkDVsavkgARAIKNSLLGIVTTRKGERPFDPNFG-CDISDQLFENMDpLTAdTIERNIESAIRNYEP 87

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1729404687  95 R--LTRVLVRADQD--SFNpLTLRFHItatINSEALHEKVQFSL 134
Cdd:PHA00415   88 RvyNLNVEVIPVYDdnSII-VTIYFSI---IDNPDDLEQIKFQL 127
 
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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