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Conserved domains on  [gi|888573192|emb|CMB00151|]
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Conserved protein of uncharacterised function%2C possible antitoxin VapB4 [Mycobacterium tuberculosis]

Protein Classification

type II toxin-antitoxin system Phd/YefM family antitoxin( domain architecture ID 10008295)

type II toxin-antitoxin (TA) system Phd/YefM family antitoxin similar to Mycobacterium tuberculosis VapB antitoxins, which are the antitoxin components of TA modules; VapB toxins bind to and neutralize the effect of their cognate VapC toxins

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Phd COG4118
Antitoxin component of toxin-antitoxin stability system, DNA-binding transcriptional repressor ...
 4-58 9.61e-13

Antitoxin component of toxin-antitoxin stability system, DNA-binding transcriptional repressor [Defense mechanisms];


:

Pssm-ID: 443294 [Multi-domain]  Cd Length: 65  Bit Score: 57.25  E-value: 9.61e-13
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*
gi 888573192  4 TIPARDLRNHTAEVLRRVAAGEEIEVLKDNRPVARIVPLKRRRQWLPAAEVIGEL 58
Cdd:COG4118   3 TVTVREAKAHLSELLDRVEAGEEVVITRRGKPVARLVPVEPPRRPRALGLLKGRL 57
 
Name Accession Description Interval E-value
Phd COG4118
Antitoxin component of toxin-antitoxin stability system, DNA-binding transcriptional repressor ...
 4-58 9.61e-13

Antitoxin component of toxin-antitoxin stability system, DNA-binding transcriptional repressor [Defense mechanisms];


Pssm-ID: 443294 [Multi-domain]  Cd Length: 65  Bit Score: 57.25  E-value: 9.61e-13
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*
gi 888573192  4 TIPARDLRNHTAEVLRRVAAGEEIEVLKDNRPVARIVPLKRRRQWLPAAEVIGEL 58
Cdd:COG4118   3 TVTVREAKAHLSELLDRVEAGEEVVITRRGKPVARLVPVEPPRRPRALGLLKGRL 57
phd_fam TIGR01552
prevent-host-death family protein; This model recognizes a region of about 55 amino acids ...
 4-48 3.32e-08

prevent-host-death family protein; This model recognizes a region of about 55 amino acids toward the N-terminal end of bacterial proteins of about 85 amino acids in length. The best-characterized member is prevent-host-death (phd) of bacteriophage P1, the antidote partner of death-on-curing (doc) (TIGR01550) in an addiction module. Addiction modules prevent plasmid curing by killing the host cell as the longer-lived killing protein persists while the gene for the shorter-lived antidote is lost. Note, however, that relatively few members of this family appear to be plasmid or phage-encoded. Also, there is little overlap, except for phage P1 itself, of species with this family and with the doc family. [Cellular processes, Toxin production and resistance, Mobile and extrachromosomal element functions, Other]


Pssm-ID: 273688  Cd Length: 52  Bit Score: 45.35  E-value: 3.32e-08
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 888573192   4 TIPARDLRNHTAEVLRRVAAGEEIEVLKDNRPVARIVPLKRRRQW 48
Cdd:TIGR01552  1 SVSLSEAKNKLGELLKRVRDGEPVTITKRGRPVAVLVSAADYDRL 45
PhdYeFM_antitox pfam02604
Antitoxin Phd_YefM, type II toxin-antitoxin system; Members of this family act as antitoxins ...
 4-43 3.74e-05

Antitoxin Phd_YefM, type II toxin-antitoxin system; Members of this family act as antitoxins in type II toxin-antitoxin systems. When bound to their toxin partners, they can bind DNA via the N-terminus and repress the expression of operons containing genes encoding the toxin and the antitoxin. This domain complexes with Txe toxins containing pfam06769, Fic/DOC toxins containing pfam02661 and YafO toxins containing pfam13957.


Pssm-ID: 460615  Cd Length: 67  Bit Score: 38.01  E-value: 3.74e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 888573192   4 TIPARDLRNHTAEVLRRVAAGEE-IEVLKDNRPVARIVPLK 43
Cdd:pfam02604  3 IVSISEARNNLSELLDEVEDGGEpVIITRRGKPVAVLLSLE 43
 
Name Accession Description Interval E-value
Phd COG4118
Antitoxin component of toxin-antitoxin stability system, DNA-binding transcriptional repressor ...
 4-58 9.61e-13

Antitoxin component of toxin-antitoxin stability system, DNA-binding transcriptional repressor [Defense mechanisms];


Pssm-ID: 443294 [Multi-domain]  Cd Length: 65  Bit Score: 57.25  E-value: 9.61e-13
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*
gi 888573192  4 TIPARDLRNHTAEVLRRVAAGEEIEVLKDNRPVARIVPLKRRRQWLPAAEVIGEL 58
Cdd:COG4118   3 TVTVREAKAHLSELLDRVEAGEEVVITRRGKPVARLVPVEPPRRPRALGLLKGRL 57
phd_fam TIGR01552
prevent-host-death family protein; This model recognizes a region of about 55 amino acids ...
 4-48 3.32e-08

prevent-host-death family protein; This model recognizes a region of about 55 amino acids toward the N-terminal end of bacterial proteins of about 85 amino acids in length. The best-characterized member is prevent-host-death (phd) of bacteriophage P1, the antidote partner of death-on-curing (doc) (TIGR01550) in an addiction module. Addiction modules prevent plasmid curing by killing the host cell as the longer-lived killing protein persists while the gene for the shorter-lived antidote is lost. Note, however, that relatively few members of this family appear to be plasmid or phage-encoded. Also, there is little overlap, except for phage P1 itself, of species with this family and with the doc family. [Cellular processes, Toxin production and resistance, Mobile and extrachromosomal element functions, Other]


Pssm-ID: 273688  Cd Length: 52  Bit Score: 45.35  E-value: 3.32e-08
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 888573192   4 TIPARDLRNHTAEVLRRVAAGEEIEVLKDNRPVARIVPLKRRRQW 48
Cdd:TIGR01552  1 SVSLSEAKNKLGELLKRVRDGEPVTITKRGRPVAVLVSAADYDRL 45
PhdYeFM_antitox pfam02604
Antitoxin Phd_YefM, type II toxin-antitoxin system; Members of this family act as antitoxins ...
 4-43 3.74e-05

Antitoxin Phd_YefM, type II toxin-antitoxin system; Members of this family act as antitoxins in type II toxin-antitoxin systems. When bound to their toxin partners, they can bind DNA via the N-terminus and repress the expression of operons containing genes encoding the toxin and the antitoxin. This domain complexes with Txe toxins containing pfam06769, Fic/DOC toxins containing pfam02661 and YafO toxins containing pfam13957.


Pssm-ID: 460615  Cd Length: 67  Bit Score: 38.01  E-value: 3.74e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 888573192   4 TIPARDLRNHTAEVLRRVAAGEE-IEVLKDNRPVARIVPLK 43
Cdd:pfam02604  3 IVSISEARNNLSELLDEVEDGGEpVIITRRGKPVAVLLSLE 43
 
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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