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Conserved domains on  [gi|491996099|ref|WP_005712590|]
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HigA family addiction module antitoxin [Glaesserella parasuis]

Protein Classification

transcriptional regulator( domain architecture ID 10006927)

helix-turn-helix-type transcriptional regulator

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
VapI COG3093
Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense ...
 1-83 1.65e-31

Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense mechanisms];


:

Pssm-ID: 442327 [Multi-domain]  Cd Length: 87  Bit Score: 105.66  E-value: 1.65e-31
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491996099  1 MSERKPSHPGEILLTGFIEPNNIKIKALAEHLGFSRETLSRVLHGKTPMTANLAIALEEAGISSARLWLSLQAAYDVWEL 80
Cdd:COG3093   1 MNKRNPIHPGEILREEFLEPLGLSQTELAKALGVSRQRISEILNGKRAITADTALRLARAFGTSAEFWLNLQAAYDLWLA 80


                ...
gi 491996099 81 KQR 83
Cdd:COG3093  81 RQK 83
 
Name Accession Description Interval E-value
VapI COG3093
Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense ...
 1-83 1.65e-31

Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense mechanisms];


Pssm-ID: 442327 [Multi-domain]  Cd Length: 87  Bit Score: 105.66  E-value: 1.65e-31
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491996099  1 MSERKPSHPGEILLTGFIEPNNIKIKALAEHLGFSRETLSRVLHGKTPMTANLAIALEEAGISSARLWLSLQAAYDVWEL 80
Cdd:COG3093   1 MNKRNPIHPGEILREEFLEPLGLSQTELAKALGVSRQRISEILNGKRAITADTALRLARAFGTSAEFWLNLQAAYDLWLA 80


                ...
gi 491996099 81 KQR 83
Cdd:COG3093  81 RQK 83
antidote_HigA TIGR02607
addiction module antidote protein, HigA family; Members of this family form a distinct clade ...
 5-82 1.10e-27

addiction module antidote protein, HigA family; Members of this family form a distinct clade within the larger family HTH_3 of helix-turn-helix proteins, described by pfam01381. Members of this clade are strictly bacterial and nearly always shorter than 110 amino acids. This family includes the characterized member HigA, without which the killer protein HigB cannot be cloned. The hig (host inhibition of growth) system is noted to be unusual in that killer protein is uncoded by the upstream member of the gene pair. [Regulatory functions, DNA interactions, Regulatory functions, Protein interactions, Mobile and extrachromosomal element functions, Other]


Pssm-ID: 274228 [Multi-domain]  Cd Length: 78  Bit Score: 95.76  E-value: 1.10e-27
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 491996099   5 KPSHPGEILLTGFIEPNNIKIKALAEHLGFSRETLSRVLHGKTPMTANLAIALEEAGISSARLWLSLQAAYDVWELKQ 82
Cdd:TIGR02607  1 NPAHPGEILLEEFLEPLGLSVRALAKALGVSRSTLSRIVNGRAAITADMALRLAKALGTSPEFWLNLQNAYDLWIAEQ 78
YdaS_antitoxin pfam15943
Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT; YdaS_antitoxin is a family ...
 26-60 1.61e-06

Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT; YdaS_antitoxin is a family of putative bacterial antitoxins, neutralising the toxin YdaT, family pfam06254.


Pssm-ID: 435033  Cd Length: 65  Bit Score: 41.56  E-value: 1.61e-06
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 491996099  26 KALAEHLGFSRETLSRVLHGKTPMTANLAIALEEA 60
Cdd:pfam15943 12 KALAEALGVTQQAVSQWLHGKKGIPAEYCPAIERA 46
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 22-60 1.23e-04

Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.


Pssm-ID: 238045 [Multi-domain]  Cd Length: 58  Bit Score: 36.76  E-value: 1.23e-04
                        10        20        30
                ....*....|....*....|....*....|....*....
gi 491996099 22 NIKIKALAEHLGFSRETLSRVLHGKTPMTANLAIALEEA 60
Cdd:cd00093  12 GLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKA 50
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
22-60 4.21e-04

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 35.19  E-value: 4.21e-04
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 491996099   22 NIKIKALAEHLGFSRETLSRVLHGKTPMTANLAIALEEA 60
Cdd:smart00530 10 GLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKA 48
lysogeny_AimR NF038310
AimR family lysis-lysogeny pheromone receptor; The founding member of this family, AimR ...
 18-49 6.29e-03

AimR family lysis-lysogeny pheromone receptor; The founding member of this family, AimR (arbitrium receptor), is a DNA-binding phage regulatory protein that acts as a receptor for a 6-amino acid signaling peptide cleaved from the C-terminus of AimP. AimR controls expression of AimX, the third member of the quorum sensing-like arbitrium system and an inhibitor of phage lysogeny.


Pssm-ID: 468467  Cd Length: 363  Bit Score: 34.04  E-value: 6.29e-03
                         10        20        30
                 ....*....|....*....|....*....|..
gi 491996099  18 IEPNNIKIKALAEHLGFSRETLSRVLHGKTPM 49
Cdd:NF038310   5 LESKGITNRKLAKKIGVSKSTLSKFFNGKGEI 36
 
Name Accession Description Interval E-value
VapI COG3093
Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense ...
 1-83 1.65e-31

Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense mechanisms];


Pssm-ID: 442327 [Multi-domain]  Cd Length: 87  Bit Score: 105.66  E-value: 1.65e-31
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491996099  1 MSERKPSHPGEILLTGFIEPNNIKIKALAEHLGFSRETLSRVLHGKTPMTANLAIALEEAGISSARLWLSLQAAYDVWEL 80
Cdd:COG3093   1 MNKRNPIHPGEILREEFLEPLGLSQTELAKALGVSRQRISEILNGKRAITADTALRLARAFGTSAEFWLNLQAAYDLWLA 80


                ...
gi 491996099 81 KQR 83
Cdd:COG3093  81 RQK 83
antidote_HigA TIGR02607
addiction module antidote protein, HigA family; Members of this family form a distinct clade ...
 5-82 1.10e-27

addiction module antidote protein, HigA family; Members of this family form a distinct clade within the larger family HTH_3 of helix-turn-helix proteins, described by pfam01381. Members of this clade are strictly bacterial and nearly always shorter than 110 amino acids. This family includes the characterized member HigA, without which the killer protein HigB cannot be cloned. The hig (host inhibition of growth) system is noted to be unusual in that killer protein is uncoded by the upstream member of the gene pair. [Regulatory functions, DNA interactions, Regulatory functions, Protein interactions, Mobile and extrachromosomal element functions, Other]


Pssm-ID: 274228 [Multi-domain]  Cd Length: 78  Bit Score: 95.76  E-value: 1.10e-27
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 491996099   5 KPSHPGEILLTGFIEPNNIKIKALAEHLGFSRETLSRVLHGKTPMTANLAIALEEAGISSARLWLSLQAAYDVWELKQ 82
Cdd:TIGR02607  1 NPAHPGEILLEEFLEPLGLSVRALAKALGVSRSTLSRIVNGRAAITADMALRLAKALGTSPEFWLNLQNAYDLWIAEQ 78
YdaS_antitoxin pfam15943
Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT; YdaS_antitoxin is a family ...
 26-60 1.61e-06

Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT; YdaS_antitoxin is a family of putative bacterial antitoxins, neutralising the toxin YdaT, family pfam06254.


Pssm-ID: 435033  Cd Length: 65  Bit Score: 41.56  E-value: 1.61e-06
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 491996099  26 KALAEHLGFSRETLSRVLHGKTPMTANLAIALEEA 60
Cdd:pfam15943 12 KALAEALGVTQQAVSQWLHGKKGIPAEYCPAIERA 46
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 22-60 1.23e-04

Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.


Pssm-ID: 238045 [Multi-domain]  Cd Length: 58  Bit Score: 36.76  E-value: 1.23e-04
                        10        20        30
                ....*....|....*....|....*....|....*....
gi 491996099 22 NIKIKALAEHLGFSRETLSRVLHGKTPMTANLAIALEEA 60
Cdd:cd00093  12 GLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKA 50
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
22-60 4.21e-04

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 35.19  E-value: 4.21e-04
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 491996099   22 NIKIKALAEHLGFSRETLSRVLHGKTPMTANLAIALEEA 60
Cdd:smart00530 10 GLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKA 48
YdaS COG4197
DNA-binding transcriptional regulator YdaS, prophage-encoded, Cro superfamily [Transcription];
26-60 6.08e-04

DNA-binding transcriptional regulator YdaS, prophage-encoded, Cro superfamily [Transcription];


Pssm-ID: 443351  Cd Length: 68  Bit Score: 35.27  E-value: 6.08e-04
                        10        20        30
                ....*....|....*....|....*....|....*
gi 491996099 26 KALAEHLGFSRETLSRVLHGKTPMTANLAIALEEA 60
Cdd:COG4197  12 SALARALGVSQQAVSQWLNGKRRVPAERCLAIERA 46
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 21-49 1.72e-03

Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the N-terminal arm of AraC binds to the DNA binding domain (pfam00165) and helps to hold the two DNA binding domains in a relative orientation that favours DNA looping. In the presence of arabinose, the arms bind over the arabinose on the dimerization domain, thus freeing the DNA-binding domains. The freed DNA-binding domains are then able to assume a conformation suitable for binding to the adjacent DNA sites that are utilized when AraC activates transcription, and hence AraC ceases looping the DNA when arabinose is added.


Pssm-ID: 425497 [Multi-domain]  Cd Length: 42  Bit Score: 33.28  E-value: 1.72e-03
                         10        20        30
                 ....*....|....*....|....*....|..
gi 491996099  21 NNIKIKALAEHLGFSRETLSRVLH---GKTPM 49
Cdd:pfam00165  7 TNLTIADIADELGFSRSYFSRLFKkytGVTPS 38
COG1395 COG1395
Predicted transcriptional regulator [Transcription];
19-59 2.61e-03

Predicted transcriptional regulator [Transcription];


Pssm-ID: 441005 [Multi-domain]  Cd Length: 313  Bit Score: 35.20  E-value: 2.61e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 491996099  19 EPNNIKIKALAEHLGFSRETLSRVLHGKTPMTANLAIALEE 59
Cdd:COG1395  137 EERGLSLGELASELGVSRRTISKYERGEMDASIEVALKLEE 177
lysogeny_AimR NF038310
AimR family lysis-lysogeny pheromone receptor; The founding member of this family, AimR ...
 18-49 6.29e-03

AimR family lysis-lysogeny pheromone receptor; The founding member of this family, AimR (arbitrium receptor), is a DNA-binding phage regulatory protein that acts as a receptor for a 6-amino acid signaling peptide cleaved from the C-terminus of AimP. AimR controls expression of AimX, the third member of the quorum sensing-like arbitrium system and an inhibitor of phage lysogeny.


Pssm-ID: 468467  Cd Length: 363  Bit Score: 34.04  E-value: 6.29e-03
                         10        20        30
                 ....*....|....*....|....*....|..
gi 491996099  18 IEPNNIKIKALAEHLGFSRETLSRVLHGKTPM 49
Cdd:NF038310   5 LESKGITNRKLAKKIGVSKSTLSKFFNGKGEI 36
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
22-67 6.61e-03

Transcriptional regulator, contains XRE-family HTH domain [Transcription];


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 32.66  E-value: 6.61e-03
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*..
gi 491996099 22 NIKIKALAEHLGFSRETLSRVLHGKTPMTANLAIALEEA-GISSARL 67
Cdd:COG1396  20 GLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKAlGVSLDEL 66
 
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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