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Conserved domains on  [gi|553762681|ref|WP_023095076|]
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MULTISPECIES: DUF6088 family protein [Pseudomonadaceae]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DUF6088 super family cl44979
Family of unknown function (DUF6088); This family of proteins is functionally uncharacterized. ...
 14-185 4.29e-24

Family of unknown function (DUF6088); This family of proteins is functionally uncharacterized. This family of proteins is found primarily in bacteria. Proteins in this family are typically between 197 and 228 amino acids in length. This family appears to be distantly related to pfam13338 suggesting proteins in this family may be an antitoxin component of a toxin/antitoxin system.


The actual alignment was detected with superfamily member pfam19570:

Pssm-ID: 437402  Cd Length: 172  Bit Score: 93.36  E-value: 4.29e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 553762681   14 VTQRVKFLRKGRPFSIRCLAGLGSSSAISKAVAQLVRRGELERVYRGIYMRPKYSQYTGRVHrPGPWDLVNLIARQNRWK 93
Cdd:pfam19570   2 IEEKIKSAKKGSLLFVDDFLDYGNAESVKKALLRLEEKEILVRLAHGIYLYPKIDKLLGKLF-PSTEEIAKAIARRDKAR 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 553762681   94 LQIHGADAVRRFGLSTQMPVIPIYYTSGSSRSLFVGKAEIRLVHAAPMVMQCAGTKVGMTISALFYLGKGGTTPECVAVI 173
Cdd:pfam19570  81 IVPTGVQALNKLGLSTQVPMNVVYLTDGAARKIKVGKRTITFKKTSPKNLLAKGEISGLAIQALKEIGKDNVDEKEIKKI 160

                         170
                  ....*....|..
gi 553762681  174 KKALSPEDLSKI 185
Cdd:pfam19570 161 QHLLRKEKIENL 172
 
Name Accession Description Interval E-value
DUF6088 pfam19570
Family of unknown function (DUF6088); This family of proteins is functionally uncharacterized. ...
 14-185 4.29e-24

Family of unknown function (DUF6088); This family of proteins is functionally uncharacterized. This family of proteins is found primarily in bacteria. Proteins in this family are typically between 197 and 228 amino acids in length. This family appears to be distantly related to pfam13338 suggesting proteins in this family may be an antitoxin component of a toxin/antitoxin system.


Pssm-ID: 437402  Cd Length: 172  Bit Score: 93.36  E-value: 4.29e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 553762681   14 VTQRVKFLRKGRPFSIRCLAGLGSSSAISKAVAQLVRRGELERVYRGIYMRPKYSQYTGRVHrPGPWDLVNLIARQNRWK 93
Cdd:pfam19570   2 IEEKIKSAKKGSLLFVDDFLDYGNAESVKKALLRLEEKEILVRLAHGIYLYPKIDKLLGKLF-PSTEEIAKAIARRDKAR 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 553762681   94 LQIHGADAVRRFGLSTQMPVIPIYYTSGSSRSLFVGKAEIRLVHAAPMVMQCAGTKVGMTISALFYLGKGGTTPECVAVI 173
Cdd:pfam19570  81 IVPTGVQALNKLGLSTQVPMNVVYLTDGAARKIKVGKRTITFKKTSPKNLLAKGEISGLAIQALKEIGKDNVDEKEIKKI 160

                         170
                  ....*....|..
gi 553762681  174 KKALSPEDLSKI 185
Cdd:pfam19570 161 QHLLRKEKIENL 172
AbiEi COG5340
Abortive phage infection protein AbiEi, antitoxin conponent of an AbiEi-AbiEii TA system ...
 32-137 1.65e-04

Abortive phage infection protein AbiEi, antitoxin conponent of an AbiEi-AbiEii TA system [Defense mechanisms];


Pssm-ID: 444124 [Multi-domain]  Cd Length: 203  Bit Score: 40.75  E-value: 1.65e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 553762681  32 LAGLGSSSAISKAVAQLVRRGELERVYRGIYMRPkysqytGRVHRPGPWDLVnlIArqNRWK----------LQIHgada 101
Cdd:COG5340   15 RAAGLSAGISRRLLSRLVKKGELERVRRGLYVLP------PAEADKEHDELL--IA--ARLVppgyisllsaLALH---- 80

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 553762681 102 vrrfGLSTQMPVIPIYYTSGSSRSLFVGKAEIRLVH 137
Cdd:COG5340   81 ----GLTDQIPFTVYVAVPRRSRPIKIGGPPIRFVR 112
 
Name Accession Description Interval E-value
DUF6088 pfam19570
Family of unknown function (DUF6088); This family of proteins is functionally uncharacterized. ...
 14-185 4.29e-24

Family of unknown function (DUF6088); This family of proteins is functionally uncharacterized. This family of proteins is found primarily in bacteria. Proteins in this family are typically between 197 and 228 amino acids in length. This family appears to be distantly related to pfam13338 suggesting proteins in this family may be an antitoxin component of a toxin/antitoxin system.


Pssm-ID: 437402  Cd Length: 172  Bit Score: 93.36  E-value: 4.29e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 553762681   14 VTQRVKFLRKGRPFSIRCLAGLGSSSAISKAVAQLVRRGELERVYRGIYMRPKYSQYTGRVHrPGPWDLVNLIARQNRWK 93
Cdd:pfam19570   2 IEEKIKSAKKGSLLFVDDFLDYGNAESVKKALLRLEEKEILVRLAHGIYLYPKIDKLLGKLF-PSTEEIAKAIARRDKAR 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 553762681   94 LQIHGADAVRRFGLSTQMPVIPIYYTSGSSRSLFVGKAEIRLVHAAPMVMQCAGTKVGMTISALFYLGKGGTTPECVAVI 173
Cdd:pfam19570  81 IVPTGVQALNKLGLSTQVPMNVVYLTDGAARKIKVGKRTITFKKTSPKNLLAKGEISGLAIQALKEIGKDNVDEKEIKKI 160

                         170
                  ....*....|..
gi 553762681  174 KKALSPEDLSKI 185
Cdd:pfam19570 161 QHLLRKEKIENL 172
AbiEi_4 pfam13338
Transcriptional regulator, AbiEi antitoxin; AbiEi_4 is the cognate antitoxin of the type IV ...
 20-65 1.58e-04

Transcriptional regulator, AbiEi antitoxin; AbiEi_4 is the cognate antitoxin of the type IV toxin-antitoxin 'innate immunity' bacterial abortive infection (Abi) system that protects bacteria from the spread of a phage infection. The Abi system is activated upon infection with phage to abort the cell thus preventing the spread of phage through viral replication. There are some 20 or more Abis, and they are predominantly plasmid-encoded lactococcal systems. TA, toxin-antitoxin, systems on plasmids function by killing cells that lose the plasmid upon division. AbiE phage resistance systems function as novel Type IV TAs and are widespread in bacteria and archaea. The cognate antitoxin is pfam13338.


Pssm-ID: 463849  Cd Length: 49  Bit Score: 37.91  E-value: 1.58e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 553762681   20 FLRKGRPFSIRCLAGLGSSSaisKAVAQLVRRGELERVYRGIYMRP 65
Cdd:pfam13338   7 AARQKGIFTTADLAAAGISR---RALRRLVRKGLLERLRRGVYALP 49
AbiEi COG5340
Abortive phage infection protein AbiEi, antitoxin conponent of an AbiEi-AbiEii TA system ...
 32-137 1.65e-04

Abortive phage infection protein AbiEi, antitoxin conponent of an AbiEi-AbiEii TA system [Defense mechanisms];


Pssm-ID: 444124 [Multi-domain]  Cd Length: 203  Bit Score: 40.75  E-value: 1.65e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 553762681  32 LAGLGSSSAISKAVAQLVRRGELERVYRGIYMRPkysqytGRVHRPGPWDLVnlIArqNRWK----------LQIHgada 101
Cdd:COG5340   15 RAAGLSAGISRRLLSRLVKKGELERVRRGLYVLP------PAEADKEHDELL--IA--ARLVppgyisllsaLALH---- 80

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 553762681 102 vrrfGLSTQMPVIPIYYTSGSSRSLFVGKAEIRLVH 137
Cdd:COG5340   81 ----GLTDQIPFTVYVAVPRRSRPIKIGGPPIRFVR 112
 
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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