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Conserved domains on  [gi|498910211|ref|WP_010845437|]
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MULTISPECIES: GPW/gp25 family protein [Xenorhabdus]

Protein Classification

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 ...
 6-108 5.81e-48

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 PHA02516:

Pssm-ID: 470187  Cd Length: 103  Bit Score: 148.69  E-value: 5.81e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498910211   6 MNRQTGRELTDLDHVRQSVSDILLTPVGSRIARRTYGSLLPELIDWPQNPALRLQVMAASYTAISRWEPRVTLTSITMET 85
Cdd:PHA02516   1 MNRETGRALSDLEHIRQSIGDILLTPLGSRVMRREYGSLLPDLIDQPQNPALRLQIYAACAMALMRWEPRITLTRVQIER 80

                         90       100
                 ....*....|....*....|...
gi 498910211  86 LQDGRMVVDITGTYHQSAREFSL 108
Cdd:PHA02516  81 AADGRMTVDITGWHVDTGEPVSL 103
 
Name Accession Description Interval E-value
W PHA02516
baseplate wedge subunit; Provisional
 6-108 5.81e-48

baseplate wedge subunit; Provisional


Pssm-ID: 134016  Cd Length: 103  Bit Score: 148.69  E-value: 5.81e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498910211   6 MNRQTGRELTDLDHVRQSVSDILLTPVGSRIARRTYGSLLPELIDWPQNPALRLQVMAASYTAISRWEPRVTLTSITMET 85
Cdd:PHA02516   1 MNRETGRALSDLEHIRQSIGDILLTPLGSRVMRREYGSLLPDLIDQPQNPALRLQIYAACAMALMRWEPRITLTRVQIER 80

                         90       100
                 ....*....|....*....|...
gi 498910211  86 LQDGRMVVDITGTYHQSAREFSL 108
Cdd:PHA02516  81 AADGRMTVDITGWHVDTGEPVSL 103
COG3628 COG3628
Phage baseplate assembly protein W [Mobilome: prophages, transposons];
1-112 5.07e-41

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


Pssm-ID: 442846  Cd Length: 119  Bit Score: 131.53  E-value: 5.07e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498910211   1 MMYLGMNRQTGR--ELTDLDHVRQSVSDILLTPVGSRIARRTYGSLLPELIDWPQNPALRLQVMAASYTAISRWEPRVTL 78
Cdd:COG3628    1 MSEPGFDRATGRvaMVSGEEHIRQSIRIILTTPPGERVMRPDFGSGLHDLLFEPNNPATALLIRAAVAEALLRWEPRIEV 80

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 498910211  79 TSI--TMETLQDGRMVVDITGTYHQSAREFSLSIPV 112
Cdd:COG3628   81 ESVdvTPDPEEDGKLLITIDYTVRATNQRFNLVYPF 116
GPW_gp25 pfam04965
Baseplate wedge protein gp25; This family represents T4 phage gp25 protein and gp25-like ...
 16-98 7.58e-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: 66.83  E-value: 7.58e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498910211   16 DLDHVRQSVSDILLTPVGSRIARRTYGSLLPELIDWPQNPALRLQVMAASYTAISRWEPRVTLTSITMETL--QDGRMVV 93
Cdd:pfam04965   3 LRESVRRDLEILLNTRPGERVSRPNYGCPDLALLFAPNDDATRALIERAIREAILRFEPRIRVVSVEVDPDpdSPGTLRF 82


                  ....*
gi 498910211   94 DITGT 98
Cdd:pfam04965  83 TIEYT 87
 
Name Accession Description Interval E-value
W PHA02516
baseplate wedge subunit; Provisional
 6-108 5.81e-48

baseplate wedge subunit; Provisional


Pssm-ID: 134016  Cd Length: 103  Bit Score: 148.69  E-value: 5.81e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498910211   6 MNRQTGRELTDLDHVRQSVSDILLTPVGSRIARRTYGSLLPELIDWPQNPALRLQVMAASYTAISRWEPRVTLTSITMET 85
Cdd:PHA02516   1 MNRETGRALSDLEHIRQSIGDILLTPLGSRVMRREYGSLLPDLIDQPQNPALRLQIYAACAMALMRWEPRITLTRVQIER 80

                         90       100
                 ....*....|....*....|...
gi 498910211  86 LQDGRMVVDITGTYHQSAREFSL 108
Cdd:PHA02516  81 AADGRMTVDITGWHVDTGEPVSL 103
COG3628 COG3628
Phage baseplate assembly protein W [Mobilome: prophages, transposons];
1-112 5.07e-41

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


Pssm-ID: 442846  Cd Length: 119  Bit Score: 131.53  E-value: 5.07e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498910211   1 MMYLGMNRQTGR--ELTDLDHVRQSVSDILLTPVGSRIARRTYGSLLPELIDWPQNPALRLQVMAASYTAISRWEPRVTL 78
Cdd:COG3628    1 MSEPGFDRATGRvaMVSGEEHIRQSIRIILTTPPGERVMRPDFGSGLHDLLFEPNNPATALLIRAAVAEALLRWEPRIEV 80

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 498910211  79 TSI--TMETLQDGRMVVDITGTYHQSAREFSLSIPV 112
Cdd:COG3628   81 ESVdvTPDPEEDGKLLITIDYTVRATNQRFNLVYPF 116
GPW_gp25 pfam04965
Baseplate wedge protein gp25; This family represents T4 phage gp25 protein and gp25-like ...
 16-98 7.58e-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: 66.83  E-value: 7.58e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498910211   16 DLDHVRQSVSDILLTPVGSRIARRTYGSLLPELIDWPQNPALRLQVMAASYTAISRWEPRVTLTSITMETL--QDGRMVV 93
Cdd:pfam04965   3 LRESVRRDLEILLNTRPGERVSRPNYGCPDLALLFAPNDDATRALIERAIREAILRFEPRIRVVSVEVDPDpdSPGTLRF 82


                  ....*
gi 498910211   94 DITGT 98
Cdd:pfam04965  83 TIEYT 87
25 PHA00415
baseplate wedge subunit
 14-81 6.94e-05

baseplate wedge subunit


Pssm-ID: 222788  Cd Length: 131  Bit Score: 39.21  E-value: 6.94e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 498910211  14 LTDLDHVRQSVSDILLTPVGSRIARRTYGSLLPELIDWPQNPALRLQVMAASYTAISRWEPRVTLTSI 81
Cdd:PHA00415  27 VKGARAIKNSLLGIVTTRKGERPFDPNFGCDISDQLFENMDPLTADTIERNIESAIRNYEPRVYNLNV 94
CDK2AP pfam09806
Cyclin-dependent kinase 2-associated protein; Members of this family of proteins are ...
 13-83 2.60e-03

Cyclin-dependent kinase 2-associated protein; Members of this family of proteins are cell-growth suppressors, associating with and influencing the biological activities of important cell cycle regulators in the S phase including monomeric non-phosphorylated cyclin-dependent kinase 2 (CDK2) and DNA polymerase alpha/primase. An association between mutations in the gene coding for this protein and oral cancer has been described.


Pssm-ID: 430840  Cd Length: 211  Bit Score: 35.64  E-value: 2.60e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 498910211   13 ELTDLDHVRQSVSDILLTPVGSRIARRTYGSLLPELIDWPQNPALRLQvmaasytaisrwEPRVTLTSITM 83
Cdd:pfam09806   2 DYLDIESFRSKYSDITVTAVPAKPQALEEQSVVPNFYDYAQEREEKEQ------------QPRVEITRIHH 60
 
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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