helix-turn-helix domain-containing protein [Aureimonas sp. N4]
Protein Classification
MerR family transcriptional regulator( domain architecture ID 323)
MerR family transcriptional regulator activates transcription through protein-dependent DNA distortion and the majority of regulators in the family respond to environmental stimuli, such as oxidative stress, heavy metals or antibiotics
List of domain hits
| Name | Accession | Description | Interval | E-value | ||
| HTH_MerR-SF super family | cl02600 | Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; ... |
3-50 | 7.98e-06 | ||
Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Helix-turn-helix (HTH) transcription regulator MerR superfamily, N-terminal domain. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription of multidrug/metal ion transporter genes and oxidative stress regulons by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates. The actual alignment was detected with superfamily member cd04762: Pssm-ID: 470628 [Multi-domain] Cd Length: 49 Bit Score: 41.03 E-value: 7.98e-06
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| Name | Accession | Description | Interval | E-value | ||
| HTH_MerR-trunc | cd04762 | Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Proteins in this family ... |
3-50 | 7.98e-06 | ||
Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Proteins in this family mostly have a truncated helix-turn-helix (HTH) MerR-like domain. They lack a portion of the C-terminal region, called Wing 2 and the long dimerization helix that is typically present in MerR-like proteins. These truncated domains are found in response regulator receiver (REC) domain proteins (i.e., CheY), cytosine-C5 specific DNA methylases, IS607 transposase-like proteins, and RacA, a bacterial protein that anchors chromosomes to cell poles. Pssm-ID: 133390 [Multi-domain] Cd Length: 49 Bit Score: 41.03 E-value: 7.98e-06
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| HTH_17 | pfam12728 | Helix-turn-helix domain; This domain is a DNA-binding helix-turn-helix domain. |
3-53 | 3.61e-04 | ||
Helix-turn-helix domain; This domain is a DNA-binding helix-turn-helix domain. Pssm-ID: 463684 [Multi-domain] Cd Length: 51 Bit Score: 36.28 E-value: 3.61e-04
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| excise | TIGR01764 | DNA binding domain, excisionase family; An excisionase, or Xis protein, is a small protein ... |
3-51 | 2.89e-03 | ||
DNA binding domain, excisionase family; An excisionase, or Xis protein, is a small protein that binds and promotes excisive recombination; it is not enzymatically active. This model represents a number of putative excisionases and related proteins from temperate phage, plasmids, and transposons, as well as DNA binding domains of other proteins, such as a DNA modification methylase. This model identifies mostly small proteins and N-terminal regions of large proteins, but some proteins appear to have two copies. This domain appears similar, in both sequence and predicted secondary structure (PSIPRED) to the MerR family of transcriptional regulators (pfam00376). [Unknown function, General] Pssm-ID: 200128 Cd Length: 49 Bit Score: 34.11 E-value: 2.89e-03
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| Name | Accession | Description | Interval | E-value | ||
| HTH_MerR-trunc | cd04762 | Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Proteins in this family ... |
3-50 | 7.98e-06 | ||
Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Proteins in this family mostly have a truncated helix-turn-helix (HTH) MerR-like domain. They lack a portion of the C-terminal region, called Wing 2 and the long dimerization helix that is typically present in MerR-like proteins. These truncated domains are found in response regulator receiver (REC) domain proteins (i.e., CheY), cytosine-C5 specific DNA methylases, IS607 transposase-like proteins, and RacA, a bacterial protein that anchors chromosomes to cell poles. Pssm-ID: 133390 [Multi-domain] Cd Length: 49 Bit Score: 41.03 E-value: 7.98e-06
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| HTH_17 | pfam12728 | Helix-turn-helix domain; This domain is a DNA-binding helix-turn-helix domain. |
3-53 | 3.61e-04 | ||
Helix-turn-helix domain; This domain is a DNA-binding helix-turn-helix domain. Pssm-ID: 463684 [Multi-domain] Cd Length: 51 Bit Score: 36.28 E-value: 3.61e-04
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| excise | TIGR01764 | DNA binding domain, excisionase family; An excisionase, or Xis protein, is a small protein ... |
3-51 | 2.89e-03 | ||
DNA binding domain, excisionase family; An excisionase, or Xis protein, is a small protein that binds and promotes excisive recombination; it is not enzymatically active. This model represents a number of putative excisionases and related proteins from temperate phage, plasmids, and transposons, as well as DNA binding domains of other proteins, such as a DNA modification methylase. This model identifies mostly small proteins and N-terminal regions of large proteins, but some proteins appear to have two copies. This domain appears similar, in both sequence and predicted secondary structure (PSIPRED) to the MerR family of transcriptional regulators (pfam00376). [Unknown function, General] Pssm-ID: 200128 Cd Length: 49 Bit Score: 34.11 E-value: 2.89e-03
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