NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|556463654|ref|WP_023315445|]
View 

MULTISPECIES: LuxR C-terminal-related transcriptional regulator [Enterobacter cloacae complex]

Protein Classification

helix-turn-helix transcriptional regulator( domain architecture ID 10006622)

helix-turn-helix (HTH) transcriptional regulator binds DNA and functions as a repressor or activator; similar to CsgD family transcriptional regulators which function in controlling the expression of structural components and assembly factors of curli fimbriae

Gene Ontology:  GO:0003700|GO:0003677|GO:0006355
PubMed:  20466769

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
46-191 4.57e-06

DNA-binding transcriptional regulator, CsgD family [Transcription];


:

Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 45.90  E-value: 4.57e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556463654  46 EVRRGSFFTLYLVLPDSIYSNIIYFHWLISLRKKAHNATISEVIIAYHSDIFPTLFSCICSHFRHRLVNINNLTNDEIIK 125
Cdd:COG2771   29 LAALLLLLALLLLAALLLLAAAAAALAAALAAALLLGLLLLLLIALLLLLLLLLALLLLLALLALLAALLARLAALLLAL 108

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 556463654 126 KMHAQRHPSKSKVVNKYIELTHMEFCVLKLMIAGYTIDDISLVHNIKPKTTYTYTNNIMKQLGFNS 191
Cdd:COG2771  109 ALAALLLAALARLLARAPGLTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSS 174
 
Name Accession Description Interval E-value
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
46-191 4.57e-06

DNA-binding transcriptional regulator, CsgD family [Transcription];


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 45.90  E-value: 4.57e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556463654  46 EVRRGSFFTLYLVLPDSIYSNIIYFHWLISLRKKAHNATISEVIIAYHSDIFPTLFSCICSHFRHRLVNINNLTNDEIIK 125
Cdd:COG2771   29 LAALLLLLALLLLAALLLLAAAAAALAAALAAALLLGLLLLLLIALLLLLLLLLALLLLLALLALLAALLARLAALLLAL 108

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 556463654 126 KMHAQRHPSKSKVVNKYIELTHMEFCVLKLMIAGYTIDDISLVHNIKPKTTYTYTNNIMKQLGFNS 191
Cdd:COG2771  109 ALAALLLAALARLLARAPGLTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSS 174
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 145-191 8.01e-06

helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 42.13  E-value: 8.01e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 556463654   145 LTHMEFCVLKLMIAGYTIDDISLVHNIKPKTTYTYTNNIMKQLGFNS 191
Cdd:smart00421   4 LTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRS 50
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 145-188 6.85e-04

C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many are active as homodimers. Many are two domain proteins in which the DNA binding property of the C-terminal DNA binding domain is modulated by modifications of the N-terminal domain. For example in the case of Lux R which participates in the regulation of gene expression in response to fluctuations in cell-population density (quorum-sensing), a signaling molecule, the pheromone Acyl HSL (N-acyl derivatives of homoserine lactone), binds to the N-terminal domain and leads to LuxR dimerization. For others phophorylation of the N-terminal domain leads to multimerization, for example Escherichia coli NarL and Sinorhizobium melilot FixJ. NarL controls gene expression of many respiratory-related operons when environmental nitrate or nitrite is present under anerobic conditions. FixJ is involved in the transcriptional activation of nitrogen fixation genes. The group also includes small proteins which lack an N-terminal signaling domain, such as Bacillus subtilis GerE. GerE is dimeric and acts in conjunction with sigmaK as an activator or a repressor modulating the expression of various genes in particular those encoding the spore-coat. These LuxR family regulators may share a similar organization of their target binding sites. For example the LuxR dimer binds the lux box, a 20bp inverted repeat, GerE dimers bind two 12bp consensus sequences in inverted orientation having the central four bases overlap, and the NarL dimer binds two 7bp inverted repeats separated by 2 bp.


Pssm-ID: 99777 [Multi-domain]  Cd Length: 57  Bit Score: 36.74  E-value: 6.85e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 556463654 145 LTHMEFCVLKLMIAGYTIDDISLVHNIKPKTTYTYTNNIMKQLG 188
Cdd:cd06170    1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLG 44
GerE pfam00196
Bacterial regulatory proteins, luxR family;
145-192 1.36e-03

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 36.02  E-value: 1.36e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 556463654  145 LTHMEFCVLKLMIAGYTIDDISLVHNIKPKTTYTYTNNIMKQLGFNSL 192
Cdd:pfam00196   3 LSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSR 50
 
Name Accession Description Interval E-value
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
46-191 4.57e-06

DNA-binding transcriptional regulator, CsgD family [Transcription];


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 45.90  E-value: 4.57e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556463654  46 EVRRGSFFTLYLVLPDSIYSNIIYFHWLISLRKKAHNATISEVIIAYHSDIFPTLFSCICSHFRHRLVNINNLTNDEIIK 125
Cdd:COG2771   29 LAALLLLLALLLLAALLLLAAAAAALAAALAAALLLGLLLLLLIALLLLLLLLLALLLLLALLALLAALLARLAALLLAL 108

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 556463654 126 KMHAQRHPSKSKVVNKYIELTHMEFCVLKLMIAGYTIDDISLVHNIKPKTTYTYTNNIMKQLGFNS 191
Cdd:COG2771  109 ALAALLLAALARLLARAPGLTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSS 174
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 145-191 8.01e-06

helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 42.13  E-value: 8.01e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 556463654   145 LTHMEFCVLKLMIAGYTIDDISLVHNIKPKTTYTYTNNIMKQLGFNS 191
Cdd:smart00421   4 LTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRS 50
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 145-188 6.85e-04

C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many are active as homodimers. Many are two domain proteins in which the DNA binding property of the C-terminal DNA binding domain is modulated by modifications of the N-terminal domain. For example in the case of Lux R which participates in the regulation of gene expression in response to fluctuations in cell-population density (quorum-sensing), a signaling molecule, the pheromone Acyl HSL (N-acyl derivatives of homoserine lactone), binds to the N-terminal domain and leads to LuxR dimerization. For others phophorylation of the N-terminal domain leads to multimerization, for example Escherichia coli NarL and Sinorhizobium melilot FixJ. NarL controls gene expression of many respiratory-related operons when environmental nitrate or nitrite is present under anerobic conditions. FixJ is involved in the transcriptional activation of nitrogen fixation genes. The group also includes small proteins which lack an N-terminal signaling domain, such as Bacillus subtilis GerE. GerE is dimeric and acts in conjunction with sigmaK as an activator or a repressor modulating the expression of various genes in particular those encoding the spore-coat. These LuxR family regulators may share a similar organization of their target binding sites. For example the LuxR dimer binds the lux box, a 20bp inverted repeat, GerE dimers bind two 12bp consensus sequences in inverted orientation having the central four bases overlap, and the NarL dimer binds two 7bp inverted repeats separated by 2 bp.


Pssm-ID: 99777 [Multi-domain]  Cd Length: 57  Bit Score: 36.74  E-value: 6.85e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 556463654 145 LTHMEFCVLKLMIAGYTIDDISLVHNIKPKTTYTYTNNIMKQLG 188
Cdd:cd06170    1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLG 44
GerE pfam00196
Bacterial regulatory proteins, luxR family;
145-192 1.36e-03

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 36.02  E-value: 1.36e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 556463654  145 LTHMEFCVLKLMIAGYTIDDISLVHNIKPKTTYTYTNNIMKQLGFNSL 192
Cdd:pfam00196   3 LSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSR 50
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 145-191 4.02e-03

DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 441799 [Multi-domain]  Cd Length: 131  Bit Score: 36.41  E-value: 4.02e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 556463654 145 LTHMEFCVLKLMIAGYTIDDISLVHNIKPKTTYTYTNNIMKQLGFNS 191
Cdd:COG2197   70 LTPREREVLRLLAEGLSNKEIAERLGISERTVKTHVSNILRKLGVRN 116
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH