NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1846594035|ref|WP_171984011|]
View 

MULTISPECIES: LuxR family transcriptional regulator [Burkholderia]

Protein Classification

LuxR family transcriptional regulator( domain architecture ID 10507072)

LuxR family transcriptional regulator similar to Brucella abortus helix-turn-helix (HTH)-type quorum sensing-dependent transcriptional regulator VjbR, which mediates the effects of the quorum sensing autoinducer C12-HSL (N-dodecanoyl-homoserine lactone)

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
Autoind_bind pfam03472
Autoinducer binding domain; This domain is found a a large family of transcriptional ...
 124-270 7.66e-20

Autoinducer binding domain; This domain is found a a large family of transcriptional regulators. This domain specifically binds to autoinducer molecules (N-Acyl homoserine lactones, chlorolactone and rosmarinic acid) (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


:

Pssm-ID: 427319  Cd Length: 148  Bit Score: 84.72  E-value: 7.66e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1846594035 124 DLSSLLKLFGDVSASLGFPRFAISRVSRRHTGNGRAMavetLCARYPDHWVAHYAQRDYGPVDPVHRMAFARATPYRWAD 203
Cdd:pfam03472   1 SEEELFDALARLAAALGFDHFAYGARAPLGLSAPDVL----VLSNYPAEWLDRYDEANYFAIDPVVRHARRSSSPFSWSD 76

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1846594035 204 I--RGLNRIEQRVLGEARDAGLTSGVSIPLRETNGDILLVNLASPS---PEIKTEVHMRLASSIGALFHQEL 270
Cdd:pfam03472  77 VlfAEARGAERRFLDEARDFGLRDGYTVPVHGPGGRLGALSFAGPGedlDPAEAIEAAARLQLLAIYAHLRL 148
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 282-339 1.54e-17

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


:

Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 75.64  E-value: 1.54e-17
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 1846594035  282 ALELSPRQQECLAWVARGKSSWAIASIVGISPHTVDYHIAEAMKILGINSRTAAAVHA 339
Cdd:smart00421   1 LASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
 
Name Accession Description Interval E-value
Autoind_bind pfam03472
Autoinducer binding domain; This domain is found a a large family of transcriptional ...
 124-270 7.66e-20

Autoinducer binding domain; This domain is found a a large family of transcriptional regulators. This domain specifically binds to autoinducer molecules (N-Acyl homoserine lactones, chlorolactone and rosmarinic acid) (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 427319  Cd Length: 148  Bit Score: 84.72  E-value: 7.66e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1846594035 124 DLSSLLKLFGDVSASLGFPRFAISRVSRRHTGNGRAMavetLCARYPDHWVAHYAQRDYGPVDPVHRMAFARATPYRWAD 203
Cdd:pfam03472   1 SEEELFDALARLAAALGFDHFAYGARAPLGLSAPDVL----VLSNYPAEWLDRYDEANYFAIDPVVRHARRSSSPFSWSD 76

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1846594035 204 I--RGLNRIEQRVLGEARDAGLTSGVSIPLRETNGDILLVNLASPS---PEIKTEVHMRLASSIGALFHQEL 270
Cdd:pfam03472  77 VlfAEARGAERRFLDEARDFGLRDGYTVPVHGPGGRLGALSFAGPGedlDPAEAIEAAARLQLLAIYAHLRL 148
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
167-345 9.08e-20

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 85.58  E-value: 9.08e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1846594035 167 ARYPDHWVAHYAQRDYGPVDPVHRMAFARATPYRWADIRGLNRIEQRVLGEARDAGLTSGVSIPLRETNGDILLVNLASP 246
Cdd:COG2771    10 LLALLLLLLALLALLLLLLLAALLLLLALLLLAALLLLAAAAAALAAALAAALLLGLLLLLLIALLLLLLLLLALLLLLA 89

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1846594035 247 SPEIKTEVHMRLASSIGALFHQELHRLMKPHRPEPALELSPRQQECLAWVARGKSSWAIASIVGISPHTVDYHIAEAMKI 326
Cdd:COG2771    90 LLALLAALLARLAALLLALALAALLLAALARLLARAPGLTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRK 169

                         170
                  ....*....|....*....
gi 1846594035 327 LGINSRTAAAVHAVTTGLI 345
Cdd:COG2771   170 LGVSSRAELVALALRLGLI 188
PRK10188 PRK10188
transcriptional regulator SdiA;
164-345 1.05e-18

transcriptional regulator SdiA;


Pssm-ID: 182292 [Multi-domain]  Cd Length: 240  Bit Score: 84.07  E-value: 1.05e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1846594035 164 TLCARYPDHWVAHYAQRDYGPVDPVHRMAFARATPYRWADirGLNRIEQRVLGEARDAGLTSGVSIPLRETNGDI--LLV 241
Cdd:PRK10188   58 AFYTTYPEAWVSHYQAENYFAIDPVLKPENFSQGHLMWND--DLFSEAQALWDAARAHGLRRGVTQCLMLPNRALgfLSF 135

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1846594035 242 NLAS--PSPEIKTEVHMRLAssigALFHQELHRLMKPHRP---EPALELSPRQQECLAWVARGKSSWAIASIVGISPHTV 316
Cdd:PRK10188  136 SRCSarEIPILSDELELRLQ----LLVRESLMALMRLEDEmvmTPEMNFSKREKEILKWTAEGKTSAEIAMILSISENTV 211

                         170       180
                  ....*....|....*....|....*....
gi 1846594035 317 DYHIAEAMKILGINSRTAAAVHAVTTGLI 345
Cdd:PRK10188  212 NFHQKNMQKKFNAPNKTQIACYAAATGLI 240
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 282-339 1.54e-17

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 75.64  E-value: 1.54e-17
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 1846594035  282 ALELSPRQQECLAWVARGKSSWAIASIVGISPHTVDYHIAEAMKILGINSRTAAAVHA 339
Cdd:smart00421   1 LASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 285-346 1.48e-16

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: 74.93  E-value: 1.48e-16
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1846594035 285 LSPRQQECLAWVARGKSSWAIASIVGISPHTVDYHIAEAMKILGINSRTAAAVHAVTTGLIH 346
Cdd:COG2197    70 LTPREREVLRLLAEGLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGLLD 131
GerE pfam00196
Bacterial regulatory proteins, luxR family;
285-339 8.31e-16

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 70.69  E-value: 8.31e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1846594035 285 LSPRQQECLAWVARGKSSWAIASIVGISPHTVDYHIAEAMKILGINSRTAAAVHA 339
Cdd:pfam00196   3 LSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELVRMA 57
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 285-340 9.23e-16

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: 70.64  E-value: 9.23e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1846594035 285 LSPRQQECLAWVARGKSSWAIASIVGISPHTVDYHIAEAMKILGINSRTAAAVHAV 340
Cdd:cd06170     1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYAI 56
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
270-337 3.55e-06

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 47.15  E-value: 3.55e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1846594035 270 LHRLMKPHRPEPALELSPRQQECLAWVARGKSSWAIASIVGISPHTVDYHIAEAMKILGINSRTAAAV 337
Cdd:PRK10403  139 REREMFGAEEDPFSVLTERELDVLHELAQGLSNKQIASVLNISEQTVKVHIRNLLRKLNVRSRVAATI 206
Sig70_bacteroi1 TIGR02985
RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors ...
 298-327 4.03e-03

RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.


Pssm-ID: 274376 [Multi-domain]  Cd Length: 161  Bit Score: 37.54  E-value: 4.03e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 1846594035 298 RGKSSWAIASIVGISPHTVDYHIAEAMKIL 327
Cdd:TIGR02985 128 EGLSNKEIAEELGISVKTVEYHITKALKFL 157
 
Name Accession Description Interval E-value
Autoind_bind pfam03472
Autoinducer binding domain; This domain is found a a large family of transcriptional ...
 124-270 7.66e-20

Autoinducer binding domain; This domain is found a a large family of transcriptional regulators. This domain specifically binds to autoinducer molecules (N-Acyl homoserine lactones, chlorolactone and rosmarinic acid) (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 427319  Cd Length: 148  Bit Score: 84.72  E-value: 7.66e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1846594035 124 DLSSLLKLFGDVSASLGFPRFAISRVSRRHTGNGRAMavetLCARYPDHWVAHYAQRDYGPVDPVHRMAFARATPYRWAD 203
Cdd:pfam03472   1 SEEELFDALARLAAALGFDHFAYGARAPLGLSAPDVL----VLSNYPAEWLDRYDEANYFAIDPVVRHARRSSSPFSWSD 76

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1846594035 204 I--RGLNRIEQRVLGEARDAGLTSGVSIPLRETNGDILLVNLASPS---PEIKTEVHMRLASSIGALFHQEL 270
Cdd:pfam03472  77 VlfAEARGAERRFLDEARDFGLRDGYTVPVHGPGGRLGALSFAGPGedlDPAEAIEAAARLQLLAIYAHLRL 148
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
167-345 9.08e-20

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 85.58  E-value: 9.08e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1846594035 167 ARYPDHWVAHYAQRDYGPVDPVHRMAFARATPYRWADIRGLNRIEQRVLGEARDAGLTSGVSIPLRETNGDILLVNLASP 246
Cdd:COG2771    10 LLALLLLLLALLALLLLLLLAALLLLLALLLLAALLLLAAAAAALAAALAAALLLGLLLLLLIALLLLLLLLLALLLLLA 89

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1846594035 247 SPEIKTEVHMRLASSIGALFHQELHRLMKPHRPEPALELSPRQQECLAWVARGKSSWAIASIVGISPHTVDYHIAEAMKI 326
Cdd:COG2771    90 LLALLAALLARLAALLLALALAALLLAALARLLARAPGLTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRK 169

                         170
                  ....*....|....*....
gi 1846594035 327 LGINSRTAAAVHAVTTGLI 345
Cdd:COG2771   170 LGVSSRAELVALALRLGLI 188
PRK10188 PRK10188
transcriptional regulator SdiA;
164-345 1.05e-18

transcriptional regulator SdiA;


Pssm-ID: 182292 [Multi-domain]  Cd Length: 240  Bit Score: 84.07  E-value: 1.05e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1846594035 164 TLCARYPDHWVAHYAQRDYGPVDPVHRMAFARATPYRWADirGLNRIEQRVLGEARDAGLTSGVSIPLRETNGDI--LLV 241
Cdd:PRK10188   58 AFYTTYPEAWVSHYQAENYFAIDPVLKPENFSQGHLMWND--DLFSEAQALWDAARAHGLRRGVTQCLMLPNRALgfLSF 135

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1846594035 242 NLAS--PSPEIKTEVHMRLAssigALFHQELHRLMKPHRP---EPALELSPRQQECLAWVARGKSSWAIASIVGISPHTV 316
Cdd:PRK10188  136 SRCSarEIPILSDELELRLQ----LLVRESLMALMRLEDEmvmTPEMNFSKREKEILKWTAEGKTSAEIAMILSISENTV 211

                         170       180
                  ....*....|....*....|....*....
gi 1846594035 317 DYHIAEAMKILGINSRTAAAVHAVTTGLI 345
Cdd:PRK10188  212 NFHQKNMQKKFNAPNKTQIACYAAATGLI 240
PRK13870 PRK13870
transcriptional regulator TraR; Provisional
 134-345 8.28e-18

transcriptional regulator TraR; Provisional


Pssm-ID: 172390 [Multi-domain]  Cd Length: 234  Bit Score: 81.19  E-value: 8.28e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1846594035 134 DVSASLGFPRFAISRVSRRHTgngramaveTLCARYPDHWVAHYAQRDYGPVDPVHRMAFARATPYRWA---DIRGLNRI 210
Cdd:PRK13870   27 DIADHFGFTGYAYLHIQHRHI---------TAVTNYHREWQSVYFDKKFDALDPVVKRARSRKHIFTWSgeqERPRLSKD 97

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1846594035 211 EQRVLGEARDAGLTSGVSIPLRETNGDILLVNLASPSPEIKTEVHM---RLASSIGALfHQELHRLMKPHRPEPALELSP 287
Cdd:PRK13870   98 ERAFYAHAADFGIRSGITIPIKTANGSMSMFTLASEKPVIDLDREIdavAAAATIGQI-HARISFLRTTPTAEDAAWLDP 176

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1846594035 288 RQQECLAWVARGKSSWAIASIVGISPHTVDYHIAEAMKILGINSRTAAAVHAVTTGLI 345
Cdd:PRK13870  177 KEATYLRWIAVGKTMEEIADVEGVKYNSVRVKLREAMKRFDVRSKAHLTALAIRRKLI 234
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 282-339 1.54e-17

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 75.64  E-value: 1.54e-17
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 1846594035  282 ALELSPRQQECLAWVARGKSSWAIASIVGISPHTVDYHIAEAMKILGINSRTAAAVHA 339
Cdd:smart00421   1 LASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 285-346 1.48e-16

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: 74.93  E-value: 1.48e-16
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1846594035 285 LSPRQQECLAWVARGKSSWAIASIVGISPHTVDYHIAEAMKILGINSRTAAAVHAVTTGLIH 346
Cdd:COG2197    70 LTPREREVLRLLAEGLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGLLD 131
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 273-345 3.29e-16

Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell division, chromosome partitioning, Transcription];


Pssm-ID: 444607 [Multi-domain]  Cd Length: 76  Bit Score: 72.30  E-value: 3.29e-16
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1846594035 273 LMKPHRPEPALELSPRQQECLAWVARGKSSWAIASIVGISPHTVDYHIAEAMKILGINSRTAAAVHAVTTGLI 345
Cdd:COG5905     1 MMPSSSTSHPSLLTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWALRLGLL 73
GerE pfam00196
Bacterial regulatory proteins, luxR family;
285-339 8.31e-16

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 70.69  E-value: 8.31e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1846594035 285 LSPRQQECLAWVARGKSSWAIASIVGISPHTVDYHIAEAMKILGINSRTAAAVHA 339
Cdd:pfam00196   3 LSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELVRMA 57
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 285-340 9.23e-16

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: 70.64  E-value: 9.23e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1846594035 285 LSPRQQECLAWVARGKSSWAIASIVGISPHTVDYHIAEAMKILGINSRTAAAVHAV 340
Cdd:cd06170     1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYAI 56
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
270-337 3.55e-06

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 47.15  E-value: 3.55e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1846594035 270 LHRLMKPHRPEPALELSPRQQECLAWVARGKSSWAIASIVGISPHTVDYHIAEAMKILGINSRTAAAV 337
Cdd:PRK10403  139 REREMFGAEEDPFSVLTERELDVLHELAQGLSNKQIASVLNISEQTVKVHIRNLLRKLNVRSRVAATI 206
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 285-340 1.05e-05

DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 443623 [Multi-domain]  Cd Length: 196  Bit Score: 45.48  E-value: 1.05e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1846594035 285 LSPRQQECLAWVARGKSSWAIASIVGISPHTVDYHIAEAMKILGINSrTAAAVHAV 340
Cdd:COG4566   138 LTPREREVLDLVVAGLSNKQIARELGISPRTVEVHRANVMEKLGARS-LAELVRLA 192
MalT COG2909
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];
277-346 5.90e-05

ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];


Pssm-ID: 442153 [Multi-domain]  Cd Length: 184  Bit Score: 43.15  E-value: 5.90e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1846594035 277 HRPEPALELSPRqqeclAWVARGKSSWAIASIVGISPHTVDYHIAEAMKILGINSRTAAAVHAVTTGLIH 346
Cdd:COG2909   120 GDREEALAALRR-----RLLAEGLSNKEIAERLFISVNTVKTHLRNIYRKLGVRSRTEAVARARELGLLA 184
Sig70_bacteroi1 TIGR02985
RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors ...
 298-327 4.03e-03

RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.


Pssm-ID: 274376 [Multi-domain]  Cd Length: 161  Bit Score: 37.54  E-value: 4.03e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 1846594035 298 RGKSSWAIASIVGISPHTVDYHIAEAMKIL 327
Cdd:TIGR02985 128 EGLSNKEIAEELGISVKTVEYHITKALKFL 157
 
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