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Conserved domains on  [gi|908645811|ref|WP_049789826|]
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MULTISPECIES: GPW/gp25 family protein [Photorhabdus]

Protein Classification

GPW/gp25 family protein( domain architecture ID 10007624)

GPW/gp25 family protein similar to type VI secretion system (T6SS) baseplate subunit TssE, which 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
COG3628 COG3628
Phage baseplate assembly protein W [Mobilome: prophages, transposons];
23-135 1.79e-33

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


:

Pssm-ID: 442846  Cd Length: 119  Bit Score: 113.81  E-value: 1.79e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 908645811  23 DNSRTGIAIAEGTQNVLQSINILFLTEPGERIMREDYGCGLNDYLFANISDELMTDIQTHIEERVLRYEPRAEITSIQVN 102
Cdd:COG3628    7 DRATGRVAMVSGEEHIRQSIRIILTTPPGERVMRPDFGSGLHDLLFEPNNPATALLIRAAVAEALLRWEPRIEVESVDVT 86

                         90       100       110
                 ....*....|....*....|....*....|...
gi 908645811 103 QRTNLPSTLHVQVTYALRGSDINQQIEGVLEVN 135
Cdd:COG3628   87 PDPEEDGKLLITIDYTVRATNQRFNLVYPFYLG 119
 
Name Accession Description Interval E-value
COG3628 COG3628
Phage baseplate assembly protein W [Mobilome: prophages, transposons];
23-135 1.79e-33

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


Pssm-ID: 442846  Cd Length: 119  Bit Score: 113.81  E-value: 1.79e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 908645811  23 DNSRTGIAIAEGTQNVLQSINILFLTEPGERIMREDYGCGLNDYLFANISDELMTDIQTHIEERVLRYEPRAEITSIQVN 102
Cdd:COG3628    7 DRATGRVAMVSGEEHIRQSIRIILTTPPGERVMRPDFGSGLHDLLFEPNNPATALLIRAAVAEALLRWEPRIEVESVDVT 86

                         90       100       110
                 ....*....|....*....|....*....|...
gi 908645811 103 QRTNLPSTLHVQVTYALRGSDINQQIEGVLEVN 135
Cdd:COG3628   87 PDPEEDGKLLITIDYTVRATNQRFNLVYPFYLG 119
GPW_gp25 pfam04965
Baseplate wedge protein gp25; This family represents T4 phage gp25 protein and gp25-like ...
 32-123 1.10e-26

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: 95.72  E-value: 1.10e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 908645811   32 AEGTQNVLQSINILFLTEPGERIMREDYGCGLNDYLFANISDELMTDIQTHIEERVLRYEPRAEITSIQVNQRTNLPSTL 111
Cdd:pfam04965   1 SSLRESVRRDLEILLNTRPGERVSRPNYGCPDLALLFAPNDDATRALIERAIREAILRFEPRIRVVSVEVDPDPDSPGTL 80

                          90
                  ....*....|..
gi 908645811  112 HVQVTYALRGSD 123
Cdd:pfam04965  81 RFTIEYTLRATP 92
25 PHA00415
baseplate wedge subunit
 14-133 6.00e-10

baseplate wedge subunit


Pssm-ID: 222788  Cd Length: 131  Bit Score: 53.47  E-value: 6.00e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 908645811  14 DDPPQFSiKDNSRTGIAIAEGTQNVLQSINILFLTEPGERIMREDYGCGLNDYLFANISDELMTDIQTHIEERVLRYEPR 93
Cdd:PHA00415  10 DIDPNFK-KSPWNKDVSAVKGARAIKNSLLGIVTTRKGERPFDPNFGCDISDQLFENMDPLTADTIERNIESAIRNYEPR 88

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 908645811  94 AEITSIQVNQRTNlPSTLHVQVTYALRGS-DINQQIEGVLE 133
Cdd:PHA00415  89 VYNLNVEVIPVYD-DNSIIVTIYFSIIDNpDDLEQIKFQLS 128
VI_zyme TIGR03357
type VI secretion system lysozyme-like protein; The description for Pfam family pfam04965 ...
 58-143 1.01e-05

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: 42.21  E-value: 1.01e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 908645811   58 DYGCG-LNDYLFANISDELMtdIQTHIEERVLRYEPRaeitsiqvnqrtnlpsTLHVQVTYALRGSDINQ---QIEGVLE 133
Cdd:TIGR03357  50 DYGLPdLNDLSLSSADDRRR--IRRAIEQAIERYEPR----------------LSRVRVTALPDEEDPLAlrfRIEAELD 111

                          90
                  ....*....|
gi 908645811  134 VNEGRVQVSL 143
Cdd:TIGR03357 112 VDGGPEPVSF 121
 
Name Accession Description Interval E-value
COG3628 COG3628
Phage baseplate assembly protein W [Mobilome: prophages, transposons];
23-135 1.79e-33

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


Pssm-ID: 442846  Cd Length: 119  Bit Score: 113.81  E-value: 1.79e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 908645811  23 DNSRTGIAIAEGTQNVLQSINILFLTEPGERIMREDYGCGLNDYLFANISDELMTDIQTHIEERVLRYEPRAEITSIQVN 102
Cdd:COG3628    7 DRATGRVAMVSGEEHIRQSIRIILTTPPGERVMRPDFGSGLHDLLFEPNNPATALLIRAAVAEALLRWEPRIEVESVDVT 86

                         90       100       110
                 ....*....|....*....|....*....|...
gi 908645811 103 QRTNLPSTLHVQVTYALRGSDINQQIEGVLEVN 135
Cdd:COG3628   87 PDPEEDGKLLITIDYTVRATNQRFNLVYPFYLG 119
GPW_gp25 pfam04965
Baseplate wedge protein gp25; This family represents T4 phage gp25 protein and gp25-like ...
 32-123 1.10e-26

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: 95.72  E-value: 1.10e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 908645811   32 AEGTQNVLQSINILFLTEPGERIMREDYGCGLNDYLFANISDELMTDIQTHIEERVLRYEPRAEITSIQVNQRTNLPSTL 111
Cdd:pfam04965   1 SSLRESVRRDLEILLNTRPGERVSRPNYGCPDLALLFAPNDDATRALIERAIREAILRFEPRIRVVSVEVDPDPDSPGTL 80

                          90
                  ....*....|..
gi 908645811  112 HVQVTYALRGSD 123
Cdd:pfam04965  81 RFTIEYTLRATP 92
25 PHA00415
baseplate wedge subunit
 14-133 6.00e-10

baseplate wedge subunit


Pssm-ID: 222788  Cd Length: 131  Bit Score: 53.47  E-value: 6.00e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 908645811  14 DDPPQFSiKDNSRTGIAIAEGTQNVLQSINILFLTEPGERIMREDYGCGLNDYLFANISDELMTDIQTHIEERVLRYEPR 93
Cdd:PHA00415  10 DIDPNFK-KSPWNKDVSAVKGARAIKNSLLGIVTTRKGERPFDPNFGCDISDQLFENMDPLTADTIERNIESAIRNYEPR 88

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 908645811  94 AEITSIQVNQRTNlPSTLHVQVTYALRGS-DINQQIEGVLE 133
Cdd:PHA00415  89 VYNLNVEVIPVYD-DNSIIVTIYFSIIDNpDDLEQIKFQLS 128
W PHA02516
baseplate wedge subunit; Provisional
 24-125 1.72e-08

baseplate wedge subunit; Provisional


Pssm-ID: 134016  Cd Length: 103  Bit Score: 48.93  E-value: 1.72e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 908645811  24 NSRTGIAIAeGTQNVLQSINILFLTEPGERIMREDYGCGLNDYLFANISDELMTDIQTHIEERVLRYEPRAEITSIQVNQ 103
Cdd:PHA02516   2 NRETGRALS-DLEHIRQSIGDILLTPLGSRVMRREYGSLLPDLIDQPQNPALRLQIYAACAMALMRWEPRITLTRVQIER 80

                         90       100
                 ....*....|....*....|..
gi 908645811 104 RTNLPSTLHVQVTYALRGSDIN 125
Cdd:PHA02516  81 AADGRMTVDITGWHVDTGEPVS 102
VI_zyme TIGR03357
type VI secretion system lysozyme-like protein; The description for Pfam family pfam04965 ...
 58-143 1.01e-05

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: 42.21  E-value: 1.01e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 908645811   58 DYGCG-LNDYLFANISDELMtdIQTHIEERVLRYEPRaeitsiqvnqrtnlpsTLHVQVTYALRGSDINQ---QIEGVLE 133
Cdd:TIGR03357  50 DYGLPdLNDLSLSSADDRRR--IRRAIEQAIERYEPR----------------LSRVRVTALPDEEDPLAlrfRIEAELD 111

                          90
                  ....*....|
gi 908645811  134 VNEGRVQVSL 143
Cdd:TIGR03357 112 VDGGPEPVSF 121
 
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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