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Conserved domains on  [gi|408534811|emb|CCK32984|]
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putative terminal protein (plasmid) [Streptomyces davaonensis JCM 4913]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HTH_22 super family cl48176
HTH domain; This domain is a helix-turn-helix domain that is likely to act as a DNA-binding ...
 6-67 5.83e-05

HTH domain; This domain is a helix-turn-helix domain that is likely to act as a DNA-binding domain.


The actual alignment was detected with superfamily member pfam13309:

Pssm-ID: 463841 [Multi-domain]  Cd Length: 63  Bit Score: 39.37  E-value: 5.83e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 408534811    6 QQAAPRRGKVLEALARAERKVFTRptpkSANAKVKFLLtraKGSAKALAERLGVSRRTVERY 67
Cdd:pfam13309   7 DEVLADVGKPPARLTKEEKREIVR----ALDEKGAFLL---KGAVEKVAKRLGVSRATVYNY 61
HTH_XRE super family cl22854
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 48-90 8.37e-03

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


The actual alignment was detected with superfamily member pfam15943:

Pssm-ID: 473980  Cd Length: 65  Bit Score: 33.86  E-value: 8.37e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 408534811   48 GSAKALAERLGVSRRTVERYRAGKLTTPQKRLhAALVEATESE 90
Cdd:pfam15943   9 GGQKALAEALGVTQQAVSQWLHGKKGIPAEYC-PAIERATSGK 50
 
Name Accession Description Interval E-value
HTH_22 pfam13309
HTH domain; This domain is a helix-turn-helix domain that is likely to act as a DNA-binding ...
 6-67 5.83e-05

HTH domain; This domain is a helix-turn-helix domain that is likely to act as a DNA-binding domain.


Pssm-ID: 463841 [Multi-domain]  Cd Length: 63  Bit Score: 39.37  E-value: 5.83e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 408534811    6 QQAAPRRGKVLEALARAERKVFTRptpkSANAKVKFLLtraKGSAKALAERLGVSRRTVERY 67
Cdd:pfam13309   7 DEVLADVGKPPARLTKEEKREIVR----ALDEKGAFLL---KGAVEKVAKRLGVSRATVYNY 61
YobV COG2378
Predicted DNA-binding transcriptional regulator YobV, contains HTH and WYL domains ...
 39-67 2.69e-03

Predicted DNA-binding transcriptional regulator YobV, contains HTH and WYL domains [Transcription];


Pssm-ID: 441945 [Multi-domain]  Cd Length: 314  Bit Score: 37.75  E-value: 2.69e-03
                         10        20
                 ....*....|....*....|....*....
gi 408534811  39 VKFLLTRAKGSAKALAERLGVSRRTVERY 67
Cdd:COG2378   11 LQLLQSRRGVTAAELAERLEVSERTIYRD 39
YdaS_antitoxin pfam15943
Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT; YdaS_antitoxin is a family ...
 48-90 8.37e-03

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: 33.86  E-value: 8.37e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 408534811   48 GSAKALAERLGVSRRTVERYRAGKLTTPQKRLhAALVEATESE 90
Cdd:pfam15943   9 GGQKALAEALGVTQQAVSQWLHGKKGIPAEYC-PAIERATSGK 50
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 38-81 8.38e-03

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: 33.30  E-value: 8.38e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 408534811  38 KVKFLLTRAKGSAKALAERLGVSRRTVERYRAGKLTTPQKRLHA 81
Cdd:cd00093    3 RLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEK 46
 
Name Accession Description Interval E-value
HTH_22 pfam13309
HTH domain; This domain is a helix-turn-helix domain that is likely to act as a DNA-binding ...
 6-67 5.83e-05

HTH domain; This domain is a helix-turn-helix domain that is likely to act as a DNA-binding domain.


Pssm-ID: 463841 [Multi-domain]  Cd Length: 63  Bit Score: 39.37  E-value: 5.83e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 408534811    6 QQAAPRRGKVLEALARAERKVFTRptpkSANAKVKFLLtraKGSAKALAERLGVSRRTVERY 67
Cdd:pfam13309   7 DEVLADVGKPPARLTKEEKREIVR----ALDEKGAFLL---KGAVEKVAKRLGVSRATVYNY 61
HTH_11 pfam08279
HTH domain; This family includes helix-turn-helix domains in a wide variety of proteins.
 42-67 2.07e-03

HTH domain; This family includes helix-turn-helix domains in a wide variety of proteins.


Pssm-ID: 429896 [Multi-domain]  Cd Length: 52  Bit Score: 35.10  E-value: 2.07e-03
                          10        20
                  ....*....|....*....|....*...
gi 408534811   42 LLTRAKG--SAKALAERLGVSRRTVERY 67
Cdd:pfam08279   6 LLLEARGpiSGQELAEKLGVSRRTIRRD 33
YobV COG2378
Predicted DNA-binding transcriptional regulator YobV, contains HTH and WYL domains ...
 39-67 2.69e-03

Predicted DNA-binding transcriptional regulator YobV, contains HTH and WYL domains [Transcription];


Pssm-ID: 441945 [Multi-domain]  Cd Length: 314  Bit Score: 37.75  E-value: 2.69e-03
                         10        20
                 ....*....|....*....|....*....
gi 408534811  39 VKFLLTRAKGSAKALAERLGVSRRTVERY 67
Cdd:COG2378   11 LQLLQSRRGVTAAELAERLEVSERTIYRD 39
YdaS_antitoxin pfam15943
Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT; YdaS_antitoxin is a family ...
 48-90 8.37e-03

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: 33.86  E-value: 8.37e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 408534811   48 GSAKALAERLGVSRRTVERYRAGKLTTPQKRLhAALVEATESE 90
Cdd:pfam15943   9 GGQKALAEALGVTQQAVSQWLHGKKGIPAEYC-PAIERATSGK 50
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 38-81 8.38e-03

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: 33.30  E-value: 8.38e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 408534811  38 KVKFLLTRAKGSAKALAERLGVSRRTVERYRAGKLTTPQKRLHA 81
Cdd:cd00093    3 RLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEK 46
 
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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