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Conserved domains on  [gi|446634723|ref|WP_000712069|]
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MULTISPECIES: toxin YdaS [Enterobacteriaceae]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 11239909)

helix-turn-helix domain-containing protein binds DNA and may function as a transcriptional regulator, similar to Xylella fastidiosa Cro protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
YdaS_antitoxin pfam15943
Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT; YdaS_antitoxin is a family ...
 8-72 2.49e-36

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: 117.44  E-value: 2.49e-36
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 446634723   8 FKQACAVVGGQSAMARLLGVSPPSVNQWIKGVRQLPAERCPAIERATRGEVLCEELRPDIDWSYL 72
Cdd:pfam15943  1 IKKAIEIVGGQKALAEALGVTQQAVSQWLHGKKGIPAEYCPAIERATSGKVTREELRPDVDWEFI 65
 
Name Accession Description Interval E-value
YdaS_antitoxin pfam15943
Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT; YdaS_antitoxin is a family ...
 8-72 2.49e-36

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: 117.44  E-value: 2.49e-36
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 446634723   8 FKQACAVVGGQSAMARLLGVSPPSVNQWIKGVRQLPAERCPAIERATRGEVLCEELRPDIDWSYL 72
Cdd:pfam15943  1 IKKAIEIVGGQKALAEALGVTQQAVSQWLHGKKGIPAEYCPAIERATSGKVTREELRPDVDWEFI 65
YdaS COG4197
DNA-binding transcriptional regulator YdaS, prophage-encoded, Cro superfamily [Transcription];
8-73 3.36e-34

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


Pssm-ID: 443351  Cd Length: 68  Bit Score: 111.93  E-value: 3.36e-34
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 446634723  8 FKQACAVVGGQSAMARLLGVSPPSVNQWIKGVRQLPAERCPAIERATRGEVLCEELRPDIDWSYLR 73
Cdd:COG4197   1 LEKAIEALGSQSALARALGVSQQAVSQWLNGKRRVPAERCLAIERATGGAVTREELRPDLDWAYLW 66
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 18-53 6.03e-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: 34.84  E-value: 6.03e-04
                        10        20        30
                ....*....|....*....|....*....|....*.
gi 446634723 18 QSAMARLLGVSPPSVNQWIKGVRQLPAERCPAIERA 53
Cdd:cd00093  15 QEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKA 50
 
Name Accession Description Interval E-value
YdaS_antitoxin pfam15943
Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT; YdaS_antitoxin is a family ...
 8-72 2.49e-36

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: 117.44  E-value: 2.49e-36
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 446634723   8 FKQACAVVGGQSAMARLLGVSPPSVNQWIKGVRQLPAERCPAIERATRGEVLCEELRPDIDWSYL 72
Cdd:pfam15943  1 IKKAIEIVGGQKALAEALGVTQQAVSQWLHGKKGIPAEYCPAIERATSGKVTREELRPDVDWEFI 65
YdaS COG4197
DNA-binding transcriptional regulator YdaS, prophage-encoded, Cro superfamily [Transcription];
8-73 3.36e-34

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


Pssm-ID: 443351  Cd Length: 68  Bit Score: 111.93  E-value: 3.36e-34
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 446634723  8 FKQACAVVGGQSAMARLLGVSPPSVNQWIKGVRQLPAERCPAIERATRGEVLCEELRPDIDWSYLR 73
Cdd:COG4197   1 LEKAIEALGSQSALARALGVSQQAVSQWLNGKRRVPAERCLAIERATGGAVTREELRPDLDWAYLW 66
P22_Cro pfam14549
DNA-binding transcriptional regulator Cro; Bacteriophage P22 Cro protein represses genes ...
 9-56 1.00e-08

DNA-binding transcriptional regulator Cro; Bacteriophage P22 Cro protein represses genes normally expressed in early phage development and is necessary for the late stage of lytic growth. It does this by binding to the OL and OR operator-regions normally used by the repressor protein for lysogenic maintenance.


Pssm-ID: 405268  Cd Length: 60  Bit Score: 47.37  E-value: 1.00e-08
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 446634723   9 KQACAVVGGQSAMARLLGVSPPSVNQWIKGVRQLPAERcpaIERATRG 56
Cdd:pfam14549  3 KDVIAHFGGVSKVAKALGVTPGAVSQWGEDVPELRAYQ---IERLTAG 47
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 18-53 6.03e-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: 34.84  E-value: 6.03e-04
                        10        20        30
                ....*....|....*....|....*....|....*.
gi 446634723 18 QSAMARLLGVSPPSVNQWIKGVRQLPAERCPAIERA 53
Cdd:cd00093  15 QEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKA 50
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
18-44 9.59e-03

DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 31.83  E-value: 9.59e-03
                        10        20
                ....*....|....*....|....*..
gi 446634723 18 QSAMARLLGVSPPSVNQWIKGVRQLPA 44
Cdd:COG2944  22 QAEFAALLGVSVSTVRRWEQGRRKPSG 48
 
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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