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Conserved domains on  [gi|15597564|ref|NP_251058|]
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hypothetical protein PA2368 [Pseudomonas aeruginosa PAO1]

Protein Classification

type VI secretion system baseplate subunit TssE( domain architecture ID 10007507)

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
GPW_gp25 super family cl01403
Baseplate wedge protein gp25; This family represents T4 phage gp25 protein and gp25-like ...
 6-124 1.97e-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.


The actual alignment was detected with superfamily member TIGR03357:

Pssm-ID: 470187  Cd Length: 133  Bit Score: 83.43  E-value: 1.97e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15597564     6 PPLFERLSAEADERP---AFDDRALAESVRGELLRLLNTRRpaNARSGILAYGLADWTAVQRLRAEDRRQLAREVRAAVE 82
Cdd:TIGR03357   2 PSLFERLPDASGESPstrRSSAEQLRESIRRHLERLLNTRR--GSCASLPDYGLPDLNDLSLSSADDRRRIRRAIEQAIE 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 15597564    83 HFEPRLQLAEVEVEPDPGNPQRLRIQLGGSLRSGSRLTPALF 124
Cdd:TIGR03357  80 RYEPRLSRVRVTALPDEEDPLALRFRIEAELDVDGGPEPVSF 121
 
Name Accession Description Interval E-value
VI_zyme TIGR03357
type VI secretion system lysozyme-like protein; The description for Pfam family pfam04965 ...
 6-124 1.97e-21

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: 83.43  E-value: 1.97e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15597564     6 PPLFERLSAEADERP---AFDDRALAESVRGELLRLLNTRRpaNARSGILAYGLADWTAVQRLRAEDRRQLAREVRAAVE 82
Cdd:TIGR03357   2 PSLFERLPDASGESPstrRSSAEQLRESIRRHLERLLNTRR--GSCASLPDYGLPDLNDLSLSSADDRRRIRRAIEQAIE 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 15597564    83 HFEPRLQLAEVEVEPDPGNPQRLRIQLGGSLRSGSRLTPALF 124
Cdd:TIGR03357  80 RYEPRLSRVRVTALPDEEDPLALRFRIEAELDVDGGPEPVSF 121
GPW_gp25 pfam04965
Baseplate wedge protein gp25; This family represents T4 phage gp25 protein and gp25-like ...
 25-115 3.05e-16

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: 68.76  E-value: 3.05e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15597564    25 RALAESVRGELLRLLNTRRPAnaRSGILAYGLADWTAV-QRLRAEDRRQLAREVRAAVEHFEPRLQLAEVEVEPDPGNPQ 103
Cdd:pfam04965   1 SSLRESVRRDLEILLNTRPGE--RVSRPNYGCPDLALLfAPNDDATRALIERAIREAILRFEPRIRVVSVEVDPDPDSPG 78

                          90
                  ....*....|..
gi 15597564   104 RLRIQLGGSLRS 115
Cdd:pfam04965  79 TLRFTIEYTLRA 90
COG3518 COG3518
Predicted component of the type VI protein secretion system [Intracellular trafficking, ...
 3-127 6.41e-16

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


Pssm-ID: 442740  Cd Length: 162  Bit Score: 70.01  E-value: 6.41e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15597564   3 GALPPLFERL-------SAEADERPAFDDRALAESVRGELLRLLNTRRP--------ANARSGILAYGLADWTAVQRLRA 67
Cdd:COG3518   9 RLQPSLLDRLtddepdrSRESPLSRVVSLEQLRESVRRDLEWLLNTRRGeasllaayPEVRRSVLNYGLPDLSGASLGSP 88

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 15597564  68 EDRRQLAREVRAAVEHFEPRLQLAEVEVEPDPG-NPQRLRIQLGGSLRSGSRLTPALFVIE 127
Cdd:COG3518  89 DDREAIERAIRQAILRFEPRLRRVSVTVLPDDDdSPNTLRFRIEAVLWADPAPEPVRFDTV 149
 
Name Accession Description Interval E-value
VI_zyme TIGR03357
type VI secretion system lysozyme-like protein; The description for Pfam family pfam04965 ...
 6-124 1.97e-21

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: 83.43  E-value: 1.97e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15597564     6 PPLFERLSAEADERP---AFDDRALAESVRGELLRLLNTRRpaNARSGILAYGLADWTAVQRLRAEDRRQLAREVRAAVE 82
Cdd:TIGR03357   2 PSLFERLPDASGESPstrRSSAEQLRESIRRHLERLLNTRR--GSCASLPDYGLPDLNDLSLSSADDRRRIRRAIEQAIE 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 15597564    83 HFEPRLQLAEVEVEPDPGNPQRLRIQLGGSLRSGSRLTPALF 124
Cdd:TIGR03357  80 RYEPRLSRVRVTALPDEEDPLALRFRIEAELDVDGGPEPVSF 121
GPW_gp25 pfam04965
Baseplate wedge protein gp25; This family represents T4 phage gp25 protein and gp25-like ...
 25-115 3.05e-16

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: 68.76  E-value: 3.05e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15597564    25 RALAESVRGELLRLLNTRRPAnaRSGILAYGLADWTAV-QRLRAEDRRQLAREVRAAVEHFEPRLQLAEVEVEPDPGNPQ 103
Cdd:pfam04965   1 SSLRESVRRDLEILLNTRPGE--RVSRPNYGCPDLALLfAPNDDATRALIERAIREAILRFEPRIRVVSVEVDPDPDSPG 78

                          90
                  ....*....|..
gi 15597564   104 RLRIQLGGSLRS 115
Cdd:pfam04965  79 TLRFTIEYTLRA 90
COG3518 COG3518
Predicted component of the type VI protein secretion system [Intracellular trafficking, ...
 3-127 6.41e-16

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


Pssm-ID: 442740  Cd Length: 162  Bit Score: 70.01  E-value: 6.41e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15597564   3 GALPPLFERL-------SAEADERPAFDDRALAESVRGELLRLLNTRRP--------ANARSGILAYGLADWTAVQRLRA 67
Cdd:COG3518   9 RLQPSLLDRLtddepdrSRESPLSRVVSLEQLRESVRRDLEWLLNTRRGeasllaayPEVRRSVLNYGLPDLSGASLGSP 88

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 15597564  68 EDRRQLAREVRAAVEHFEPRLQLAEVEVEPDPG-NPQRLRIQLGGSLRSGSRLTPALFVIE 127
Cdd:COG3518  89 DDREAIERAIRQAILRFEPRLRRVSVTVLPDDDdSPNTLRFRIEAVLWADPAPEPVRFDTV 149
COG3628 COG3628
Phage baseplate assembly protein W [Mobilome: prophages, transposons];
70-120 1.10e-05

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


Pssm-ID: 442846  Cd Length: 119  Bit Score: 41.78  E-value: 1.10e-05
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|..
gi 15597564  70 RRQLAREVRAAVEHFEPRLQLAEVEVEPDPGNPQRLRIQLGGSLR-SGSRLT 120
Cdd:COG3628  60 ALLIRAAVAEALLRWEPRIEVESVDVTPDPEEDGKLLITIDYTVRaTNQRFN 111
 
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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