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Conserved domains on  [gi|499493596|ref|WP_011180236|]
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MULTISPECIES: type II toxin-antitoxin system YafQ family toxin [Bartonella]

Protein Classification

type II toxin-antitoxin system YafQ family toxin( domain architecture ID 11239005)

type II toxin-antitoxin (TA) system YafQ family toxin similar to Escherichia coli YafQ, which functions as a sequence-specific mRNA endoribonuclease that inhibits translation elongation and induces bacterial stasis, and is the toxin component of the YafQ-DinJ TA module that plays a role in biofilm formation

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
YafQ_toxin pfam15738
Bacterial toxin of type II toxin-antitoxin system, YafQ; YafQ is a family of bacterial toxin ...
 2-94 1.12e-32

Bacterial toxin of type II toxin-antitoxin system, YafQ; YafQ is a family of bacterial toxin ribonucleases of type II toxin-antitoxin systems. The E.coli gene is expressed from the dinB operon. The cognate antitoxin for the E. coli protein is DinJ, in family RelB_antitoxin, pfam02604.


:

Pssm-ID: 434896  Cd Length: 88  Bit Score: 108.72  E-value: 1.12e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499493596   2 REIVYTKSFRCDLKRESKGRYadtletEETDLLLVIKALAENELLKVQWRDHALTGQWRNCRDCHIKPDLVLIYRKPDDE 81
Cdd:pfam15738  1 YKIKYTKQFKKDYKRAKKRGY------DIEKLKEVIDLLAEGEPLPEKYRDHALKGNWKGHRECHIKPDWLLIYRIDDDE 74

                         90
                 ....*....|...
gi 499493596  82 tLELLRLGSHSEL 94
Cdd:pfam15738 75 -LILVRTGSHSDL 86
 
Name Accession Description Interval E-value
YafQ_toxin pfam15738
Bacterial toxin of type II toxin-antitoxin system, YafQ; YafQ is a family of bacterial toxin ...
 2-94 1.12e-32

Bacterial toxin of type II toxin-antitoxin system, YafQ; YafQ is a family of bacterial toxin ribonucleases of type II toxin-antitoxin systems. The E.coli gene is expressed from the dinB operon. The cognate antitoxin for the E. coli protein is DinJ, in family RelB_antitoxin, pfam02604.


Pssm-ID: 434896  Cd Length: 88  Bit Score: 108.72  E-value: 1.12e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499493596   2 REIVYTKSFRCDLKRESKGRYadtletEETDLLLVIKALAENELLKVQWRDHALTGQWRNCRDCHIKPDLVLIYRKPDDE 81
Cdd:pfam15738  1 YKIKYTKQFKKDYKRAKKRGY------DIEKLKEVIDLLAEGEPLPEKYRDHALKGNWKGHRECHIKPDWLLIYRIDDDE 74

                         90
                 ....*....|...
gi 499493596  82 tLELLRLGSHSEL 94
Cdd:pfam15738 75 -LILVRTGSHSDL 86
YafQ COG3041
mRNA-degrading endonuclease YafQ (mRNA interferase), toxin component of the YafQ-DinJ ...
 1-95 1.39e-29

mRNA-degrading endonuclease YafQ (mRNA interferase), toxin component of the YafQ-DinJ toxin-antitoxin module [Translation, ribosomal structure and biogenesis, Defense mechanisms];


Pssm-ID: 442275  Cd Length: 88  Bit Score: 101.03  E-value: 1.39e-29
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499493596  1 MREIVYTKSFRCDLKRESKGRYadtletEETDLLLVIKALAENELLKVQWRDHALTGQWRNCRDCHIKPDLVLIYRKpDD 80
Cdd:COG3041   1 MLKIVYTKQFKKDLKKLKKRGP------DIEKLKKVLRLLAEGNPLPPSLRDHALKGNLKGYRECHINPDWRLIYRI-ED 73

                        90
                ....*....|....*
gi 499493596 81 ETLELLRLGSHSELR 95
Cdd:COG3041  74 DVLILVRIGSHSELF 88
RelE_StbE TIGR02385
addiction module toxin, RelE/StbE family; Plasmids may be maintained stably in bacterial ...
 3-94 5.75e-20

addiction module toxin, RelE/StbE family; Plasmids may be maintained stably in bacterial populations through the action of addiction modules, in which a toxin and antidote are encoded in a cassette on the plasmid. In any daughter cell that lacks the plasmid, the toxin persists and is lethal after the antidote protein is depleted. Toxin/antitoxin pairs are also found on main chromosomes, and likely represent selfish DNA. Sequences in the seed for this alignment all are found adjacent to RelB/DinJ family antitoxin genes (TIGR02384), as are most genes found by the resulting model. StbE from Morganella morganii plasmid R485 shows typical behaviour for an addiction module toxin. It cannot be cloned without its partner (the antitoxin), whereas its partner cannot confer plasmid stability without StbE. [Cellular processes, Toxin production and resistance, Mobile and extrachromosomal element functions, Other]


Pssm-ID: 211740  Cd Length: 88  Bit Score: 76.58  E-value: 5.75e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499493596   3 EIVYTKSFRCDLKRESKGRYADTleteeTDLLLVIKALAENELLKVQWRDHALTGQWRNCRDCHIKPDLVLIYRKPDDET 82
Cdd:TIGR02385  1 KIVYTEQFKKDLKKIKKYIRKDL-----PKLLEVIELLINGKPLERRYRDHPLTGSWKGTRECHIEPDYLLVYQVEDEVV 75

                         90
                 ....*....|..
gi 499493596  83 LELLRLGSHSEL 94
Cdd:TIGR02385 76 IRLVRVGSHSQL 87
 
Name Accession Description Interval E-value
YafQ_toxin pfam15738
Bacterial toxin of type II toxin-antitoxin system, YafQ; YafQ is a family of bacterial toxin ...
 2-94 1.12e-32

Bacterial toxin of type II toxin-antitoxin system, YafQ; YafQ is a family of bacterial toxin ribonucleases of type II toxin-antitoxin systems. The E.coli gene is expressed from the dinB operon. The cognate antitoxin for the E. coli protein is DinJ, in family RelB_antitoxin, pfam02604.


Pssm-ID: 434896  Cd Length: 88  Bit Score: 108.72  E-value: 1.12e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499493596   2 REIVYTKSFRCDLKRESKGRYadtletEETDLLLVIKALAENELLKVQWRDHALTGQWRNCRDCHIKPDLVLIYRKPDDE 81
Cdd:pfam15738  1 YKIKYTKQFKKDYKRAKKRGY------DIEKLKEVIDLLAEGEPLPEKYRDHALKGNWKGHRECHIKPDWLLIYRIDDDE 74

                         90
                 ....*....|...
gi 499493596  82 tLELLRLGSHSEL 94
Cdd:pfam15738 75 -LILVRTGSHSDL 86
YafQ COG3041
mRNA-degrading endonuclease YafQ (mRNA interferase), toxin component of the YafQ-DinJ ...
 1-95 1.39e-29

mRNA-degrading endonuclease YafQ (mRNA interferase), toxin component of the YafQ-DinJ toxin-antitoxin module [Translation, ribosomal structure and biogenesis, Defense mechanisms];


Pssm-ID: 442275  Cd Length: 88  Bit Score: 101.03  E-value: 1.39e-29
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499493596  1 MREIVYTKSFRCDLKRESKGRYadtletEETDLLLVIKALAENELLKVQWRDHALTGQWRNCRDCHIKPDLVLIYRKpDD 80
Cdd:COG3041   1 MLKIVYTKQFKKDLKKLKKRGP------DIEKLKKVLRLLAEGNPLPPSLRDHALKGNLKGYRECHINPDWRLIYRI-ED 73

                        90
                ....*....|....*
gi 499493596 81 ETLELLRLGSHSELR 95
Cdd:COG3041  74 DVLILVRIGSHSELF 88
RelE_StbE TIGR02385
addiction module toxin, RelE/StbE family; Plasmids may be maintained stably in bacterial ...
 3-94 5.75e-20

addiction module toxin, RelE/StbE family; Plasmids may be maintained stably in bacterial populations through the action of addiction modules, in which a toxin and antidote are encoded in a cassette on the plasmid. In any daughter cell that lacks the plasmid, the toxin persists and is lethal after the antidote protein is depleted. Toxin/antitoxin pairs are also found on main chromosomes, and likely represent selfish DNA. Sequences in the seed for this alignment all are found adjacent to RelB/DinJ family antitoxin genes (TIGR02384), as are most genes found by the resulting model. StbE from Morganella morganii plasmid R485 shows typical behaviour for an addiction module toxin. It cannot be cloned without its partner (the antitoxin), whereas its partner cannot confer plasmid stability without StbE. [Cellular processes, Toxin production and resistance, Mobile and extrachromosomal element functions, Other]


Pssm-ID: 211740  Cd Length: 88  Bit Score: 76.58  E-value: 5.75e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499493596   3 EIVYTKSFRCDLKRESKGRYADTleteeTDLLLVIKALAENELLKVQWRDHALTGQWRNCRDCHIKPDLVLIYRKPDDET 82
Cdd:TIGR02385  1 KIVYTEQFKKDLKKIKKYIRKDL-----PKLLEVIELLINGKPLERRYRDHPLTGSWKGTRECHIEPDYLLVYQVEDEVV 75

                         90
                 ....*....|..
gi 499493596  83 LELLRLGSHSEL 94
Cdd:TIGR02385 76 IRLVRVGSHSQL 87
TIGR00053 TIGR00053
addiction module toxin component, YafQ family; This model represents a cluster of eubacterial ...
 1-94 1.96e-17

addiction module toxin component, YafQ family; This model represents a cluster of eubacterial proteins and a cluster of archaeal proteins, all of which are uncharacterized, from 85 to 102 residues in length, and similar in sequence. These include YafQ, a ribosome-associated endoribonuclease that serves as part of a toxin-antitoxin system, for which DinJ is the antidote component. [Cellular processes, Adaptations to atypical conditions]


Pssm-ID: 272877  Cd Length: 90  Bit Score: 70.20  E-value: 1.96e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499493596   1 MREIVYTKSFRCDLKRESKGRYADTleteeTDLLLVIKALAENELLKVQWRDHALTGQWRNCRDCHIKPDLVLIYrKPDD 80
Cdd:TIGR00053  1 MLKIEYSKQFDKDLKKLQKRDGKDL-----KKLKKKMEELINTLPLPEHYKDHPLRGSWKGFRDCHIKPDVILIY-KVKD 74

                         90
                 ....*....|....
gi 499493596  81 ETLELLRLGSHSEL 94
Cdd:TIGR00053 75 DTLIFVRLGHHSEL 88
ParE_toxin pfam05016
ParE toxin of type II toxin-antitoxin system, parDE; ParE is the toxin family of a type II ...
 4-94 6.93e-03

ParE toxin of type II toxin-antitoxin system, parDE; ParE is the toxin family of a type II toxin-antitoxin family. It is toxic towards DNA gyrase, but is neutralized by the antitoxin ParD. The family also encompasses RelE/ParE described in.


Pssm-ID: 398610 [Multi-domain]  Cd Length: 91  Bit Score: 32.79  E-value: 6.93e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499493596   4 IVYTKSFRCDLKRESKGRYADTLETEETDLLLVIKA---LAENELLKVQWRDhaltGQWRNCRDCHIKpDLVLIYRKPDD 80
Cdd:pfam05016  1 VILTPKALKDLKKIADYIAQDNPDAAERFLKALEEAlelLAENPALGRPLPE----GGLKGLRRIRIG-DYRIIYRIDDD 75

                         90
                 ....*....|....*
gi 499493596  81 E-TLELLRLGSHSEL 94
Cdd:pfam05016 76 DlVILILRVGHRRRD 90
 
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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