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Conserved domains on  [gi|487653755|ref|WP_001748272|]
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MULTISPECIES: type II toxin-antitoxin system YafQ family toxin [Lactobacillales]

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 ...
 4-104 1.12e-22

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: 84.07  E-value: 1.12e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487653755    4 LRFKPRATFNADLKRLASlDKSIIDEVRAAIDLLLEQQQLPSEFEDHELNRRMSGYNEFHLRDtpknktpsetnDVLVVY 83
Cdd:pfam15738   1 YKIKYTKQFKKDYKRAKK-RGYDIEKLKEVIDLLAEGEPLPEKYRDHALKGNWKGHRECHIKP-----------DWLLIY 68

                          90       100
                  ....*....|....*....|.
gi 487653755   84 TIDKDELVLigIRVGSHDRLF 104
Cdd:pfam15738  69 RIDDDELIL--VRTGSHSDLF 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 ...
 4-104 1.12e-22

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: 84.07  E-value: 1.12e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487653755    4 LRFKPRATFNADLKRLASlDKSIIDEVRAAIDLLLEQQQLPSEFEDHELNRRMSGYNEFHLRDtpknktpsetnDVLVVY 83
Cdd:pfam15738   1 YKIKYTKQFKKDYKRAKK-RGYDIEKLKEVIDLLAEGEPLPEKYRDHALKGNWKGHRECHIKP-----------DWLLIY 68

                          90       100
                  ....*....|....*....|.
gi 487653755   84 TIDKDELVLigIRVGSHDRLF 104
Cdd:pfam15738  69 RIDDDELIL--VRTGSHSDLF 87
YafQ COG3041
mRNA-degrading endonuclease YafQ (mRNA interferase), toxin component of the YafQ-DinJ ...
 1-104 1.27e-18

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: 74.06  E-value: 1.27e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487653755   1 MKKLRFKPRatFNADLKRLASLDKSIiDEVRAAIDLLLEQQQLPSEFEDHELNRRMSGYNEFHLrdtpknktpseTNDVL 80
Cdd:COG3041    1 MLKIVYTKQ--FKKDLKKLKKRGPDI-EKLKKVLRLLAEGNPLPPSLRDHALKGNLKGYRECHI-----------NPDWR 66

                         90       100
                 ....*....|....*....|....
gi 487653755  81 VVYTIDKDELVLigIRVGSHDRLF 104
Cdd:COG3041   67 LIYRIEDDVLIL--VRIGSHSELF 88
RelE_StbE TIGR02385
addiction module toxin, RelE/StbE family; Plasmids may be maintained stably in bacterial ...
 11-104 2.22e-09

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: 50.38  E-value: 2.22e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487653755   11 TFNADLKRLASLDKSIIDEVRAAIDLLLEQQQLPSEFEDHELNRRMSGYNEFHLRdtpknktpsetNDVLVVYTIDkDEL 90
Cdd:TIGR02385   7 QFKKDLKKIKKYIRKDLPKLLEVIELLINGKPLERRYRDHPLTGSWKGTRECHIE-----------PDYLLVYQVE-DEV 74

                          90
                  ....*....|....
gi 487653755   91 VLIGIRVGSHDRLF 104
Cdd:TIGR02385  75 VIRLVRVGSHSQLF 88
 
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 ...
 4-104 1.12e-22

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: 84.07  E-value: 1.12e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487653755    4 LRFKPRATFNADLKRLASlDKSIIDEVRAAIDLLLEQQQLPSEFEDHELNRRMSGYNEFHLRDtpknktpsetnDVLVVY 83
Cdd:pfam15738   1 YKIKYTKQFKKDYKRAKK-RGYDIEKLKEVIDLLAEGEPLPEKYRDHALKGNWKGHRECHIKP-----------DWLLIY 68

                          90       100
                  ....*....|....*....|.
gi 487653755   84 TIDKDELVLigIRVGSHDRLF 104
Cdd:pfam15738  69 RIDDDELIL--VRTGSHSDLF 87
YafQ COG3041
mRNA-degrading endonuclease YafQ (mRNA interferase), toxin component of the YafQ-DinJ ...
 1-104 1.27e-18

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: 74.06  E-value: 1.27e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487653755   1 MKKLRFKPRatFNADLKRLASLDKSIiDEVRAAIDLLLEQQQLPSEFEDHELNRRMSGYNEFHLrdtpknktpseTNDVL 80
Cdd:COG3041    1 MLKIVYTKQ--FKKDLKKLKKRGPDI-EKLKKVLRLLAEGNPLPPSLRDHALKGNLKGYRECHI-----------NPDWR 66

                         90       100
                 ....*....|....*....|....
gi 487653755  81 VVYTIDKDELVLigIRVGSHDRLF 104
Cdd:COG3041   67 LIYRIEDDVLIL--VRIGSHSELF 88
RelE_StbE TIGR02385
addiction module toxin, RelE/StbE family; Plasmids may be maintained stably in bacterial ...
 11-104 2.22e-09

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: 50.38  E-value: 2.22e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487653755   11 TFNADLKRLASLDKSIIDEVRAAIDLLLEQQQLPSEFEDHELNRRMSGYNEFHLRdtpknktpsetNDVLVVYTIDkDEL 90
Cdd:TIGR02385   7 QFKKDLKKIKKYIRKDLPKLLEVIELLINGKPLERRYRDHPLTGSWKGTRECHIE-----------PDYLLVYQVE-DEV 74

                          90
                  ....*....|....
gi 487653755   91 VLIGIRVGSHDRLF 104
Cdd:TIGR02385  75 VIRLVRVGSHSQLF 88
ParE_toxin pfam05016
ParE toxin of type II toxin-antitoxin system, parDE; ParE is the toxin family of a type II ...
 4-104 5.34e-05

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: 38.95  E-value: 5.34e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487653755    4 LRFKPRAtfNADLKRLAS--------LDKSIIDEVRAAIDLLLEQQQLPSEFEDHelnrRMSGYNEFHLRDtpknktpse 75
Cdd:pfam05016   1 VILTPKA--LKDLKKIADyiaqdnpdAAERFLKALEEALELLAENPALGRPLPEG----GLKGLRRIRIGD--------- 65

                          90       100
                  ....*....|....*....|....*....
gi 487653755   76 tndVLVVYTIDKDELVLIGIRVGSHDRLF 104
Cdd:pfam05016  66 ---YRIIYRIDDDDLVILILRVGHRRRDY 91
RelE COG2026
mRNA-degrading endonuclease RelE, toxin component of the RelBE toxin-antitoxin system [Defense ...
 1-101 6.24e-03

mRNA-degrading endonuclease RelE, toxin component of the RelBE toxin-antitoxin system [Defense mechanisms];


Pssm-ID: 441629  Cd Length: 85  Bit Score: 33.25  E-value: 6.24e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487653755   1 MKKLRFKPRAtfnadLKRLASLDKSIIDEVRAAIDLLLEQQQLPSEfedhelnrRMSGY--NEFHLRdtpknktpseTND 78
Cdd:COG2026    1 MYKVEFTPRA-----LKDLKKLDKKVQKRIKKKIEELAENPRPGGK--------KLKGSlkGLYRLR----------VGD 57

                         90       100
                 ....*....|....*....|...
gi 487653755  79 VLVVYTIDKDELVLIGIRVGSHD 101
Cdd:COG2026   58 YRIIYEIDDDELVVLVLAIGHRR 80
 
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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