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Conserved domains on  [gi|652337853|ref|WP_026735066|]
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MULTISPECIES: AraC family transcriptional regulator [unclassified Fischerella]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 11454391)

helix-turn-helix (HTH) domain-containing protein with an AraC family HTH domain, binds DNA and may function as a transcriptional regulator

CATH:  1.10.10.60
Gene Ontology:  GO:0003700|GO:0003677
PubMed:  10473770|15808743|8831795

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
GlxA super family cl34854
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 199-298 3.78e-36

Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH domain [Transcription];


The actual alignment was detected with superfamily member COG4977:

Pssm-ID: 444002 [Multi-domain]  Cd Length: 318  Bit Score: 131.82  E-value: 3.78e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 199 LRKAIEYINENLEQDLTLAEIAAAVGMSMYHFSRLFKQSTGLSPHQYVMNCRIEKAKKLLVLSEETINQICQQVGFQNQS 278
Cdd:COG4977  212 LARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSAS 291

                         90       100
                 ....*....|....*....|
gi 652337853 279 HFTSVFRRLIGITPKVYREQ 298
Cdd:COG4977  292 HFRRAFRRRFGVSPSAYRRR 311
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
40-300 8.23e-30

AraC-type DNA-binding domain and AraC-containing proteins [Transcription];


:

Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 113.72  E-value: 8.23e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853  40 DYHQQPGHSTPEHSPKQHVISISLEERPVKVERVLNGHLHHECINYGDITVVPANSYHKLHWDLEAKFLLVSLDAELFTR 119
Cdd:COG2207    1 LRLLILLLLLLLLLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 120 VGYDSIDLQNYEVLPQLASADPLIQHIGLALKSELESDGMGSRIYIESLATTLCIHLLknySTSLAKISTYSDGLSRIQL 199
Cdd:COG2207   81 LLLALLALLLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLL---LLLLLLLLLLLLLLLLLLL 157

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 200 RKAIEyinENLEQDLTLAEIAAAVGMSMYHFSRLFKQSTGLSPHQYVMNCRIEKAKKLLVLSEETINQICQQVGFQNQSH 279
Cdd:COG2207  158 LLLLL---LLLLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSH 234

                        250       260
                 ....*....|....*....|.
gi 652337853 280 FTSVFRRLIGITPKVYREQVK 300
Cdd:COG2207  235 FSRAFKKRFGVTPSEYRKRLR 255
 
Name Accession Description Interval E-value
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 199-298 3.78e-36

Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH domain [Transcription];


Pssm-ID: 444002 [Multi-domain]  Cd Length: 318  Bit Score: 131.82  E-value: 3.78e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 199 LRKAIEYINENLEQDLTLAEIAAAVGMSMYHFSRLFKQSTGLSPHQYVMNCRIEKAKKLLVLSEETINQICQQVGFQNQS 278
Cdd:COG4977  212 LARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSAS 291

                         90       100
                 ....*....|....*....|
gi 652337853 279 HFTSVFRRLIGITPKVYREQ 298
Cdd:COG4977  292 HFRRAFRRRFGVSPSAYRRR 311
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
213-296 6.14e-34

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 118.81  E-value: 6.14e-34
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853   213 DLTLAEIAAAVGMSMYHFSRLFKQSTGLSPHQYVMNCRIEKAKKLLVLSEETINQICQQVGFQNQSHFTSVFRRLIGITP 292
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 652337853   293 KVYR 296
Cdd:smart00342  81 SEYR 84
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
40-300 8.23e-30

AraC-type DNA-binding domain and AraC-containing proteins [Transcription];


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 113.72  E-value: 8.23e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853  40 DYHQQPGHSTPEHSPKQHVISISLEERPVKVERVLNGHLHHECINYGDITVVPANSYHKLHWDLEAKFLLVSLDAELFTR 119
Cdd:COG2207    1 LRLLILLLLLLLLLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 120 VGYDSIDLQNYEVLPQLASADPLIQHIGLALKSELESDGMGSRIYIESLATTLCIHLLknySTSLAKISTYSDGLSRIQL 199
Cdd:COG2207   81 LLLALLALLLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLL---LLLLLLLLLLLLLLLLLLL 157

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 200 RKAIEyinENLEQDLTLAEIAAAVGMSMYHFSRLFKQSTGLSPHQYVMNCRIEKAKKLLVLSEETINQICQQVGFQNQSH 279
Cdd:COG2207  158 LLLLL---LLLLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSH 234

                        250       260
                 ....*....|....*....|.
gi 652337853 280 FTSVFRRLIGITPKVYREQVK 300
Cdd:COG2207  235 FSRAFKKRFGVTPSEYRKRLR 255
HTH_18 pfam12833
Helix-turn-helix domain;
219-298 2.88e-27

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 101.51  E-value: 2.88e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853  219 IAAAVGMSMYHFSRLFKQSTGLSPHQYVMNCRIEKAKKLLV-LSEETINQICQQVGFQNQSHFTSVFRRLIGITPKVYRE 297
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLeDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 652337853  298 Q 298
Cdd:pfam12833  81 R 81
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
139-298 9.11e-21

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 89.65  E-value: 9.11e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 139 ADP-LIQHIGlALKSELESDGMGSRIYIESLATTLCIHLLknystsLAKISTYSDGLSRI---QLRKAIEYINENLEQDL 214
Cdd:PRK10572 128 PDEaLQPEFS-DLFGQIEQAGQSEGRYSELLAMNLLERLL------LRCMEAIPESLHPPmdpRVREACQYISDHLASEF 200

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 215 TLAEIAAAVGMSMYHFSRLFKQSTGLSPHQYVMNCRIEKAKKLLVLSEETINQICQQVGFQNQSHFTSVFRRLIGITPKV 294
Cdd:PRK10572 201 DIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQLYFSRVFKKCTGASPSE 280


                 ....
gi 652337853 295 YREQ 298
Cdd:PRK10572 281 FRAR 284
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 199-296 1.48e-15

YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only one protein with the YSIRK variant form of signal peptide (TIGR01168) were examined for conserved genes near that one tagged protein. This protein is found adjacent to at various classes of repetitive or low-complexity YSIRK proteins (whether unique in genome or not), in a range of species (Enterococcus faecalis X98, Ruminococcus torques, Coprobacillus sp. D7, Lysinibacillus fusiformis ZC1, Streptococcus equi subsp. equi 4047, etc). The affliated YSIRK proteins include Streptococcal protective antigen (see ) and proteins with the Rib/alpha/Esp surface antigen repeat (see TIGR02331). The last quarter of this protein has an AraC family helix-turn-helix (HTH)transcriptional regulator domain.


Pssm-ID: 274977 [Multi-domain]  Cd Length: 383  Bit Score: 76.25  E-value: 1.48e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853  199 LRKAIEYINENLEQDLTLAEIAAAVGMSMYHFSRLFKQSTGLSPHQYVMNCRIEKAKKLLvLSEETINQICQQVGFQNQS 278
Cdd:TIGR04094 287 IRAVIQYINLNLYDPLKVEEIAKQFFMSESKLRKLFKKEMGISIQEYISKRKIEEAKYLL-RSQIPVSEVSNELGFYDLS 365

                          90
                  ....*....|....*...
gi 652337853  279 HFTSVFRRLIGITPKVYR 296
Cdd:TIGR04094 366 HFSRTFKKHTGVSPKQYQ 383
 
Name Accession Description Interval E-value
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 199-298 3.78e-36

Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH domain [Transcription];


Pssm-ID: 444002 [Multi-domain]  Cd Length: 318  Bit Score: 131.82  E-value: 3.78e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 199 LRKAIEYINENLEQDLTLAEIAAAVGMSMYHFSRLFKQSTGLSPHQYVMNCRIEKAKKLLVLSEETINQICQQVGFQNQS 278
Cdd:COG4977  212 LARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSAS 291

                         90       100
                 ....*....|....*....|
gi 652337853 279 HFTSVFRRLIGITPKVYREQ 298
Cdd:COG4977  292 HFRRAFRRRFGVSPSAYRRR 311
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
213-296 6.14e-34

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 118.81  E-value: 6.14e-34
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853   213 DLTLAEIAAAVGMSMYHFSRLFKQSTGLSPHQYVMNCRIEKAKKLLVLSEETINQICQQVGFQNQSHFTSVFRRLIGITP 292
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 652337853   293 KVYR 296
Cdd:smart00342  81 SEYR 84
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
40-300 8.23e-30

AraC-type DNA-binding domain and AraC-containing proteins [Transcription];


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 113.72  E-value: 8.23e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853  40 DYHQQPGHSTPEHSPKQHVISISLEERPVKVERVLNGHLHHECINYGDITVVPANSYHKLHWDLEAKFLLVSLDAELFTR 119
Cdd:COG2207    1 LRLLILLLLLLLLLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 120 VGYDSIDLQNYEVLPQLASADPLIQHIGLALKSELESDGMGSRIYIESLATTLCIHLLknySTSLAKISTYSDGLSRIQL 199
Cdd:COG2207   81 LLLALLALLLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLL---LLLLLLLLLLLLLLLLLLL 157

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 200 RKAIEyinENLEQDLTLAEIAAAVGMSMYHFSRLFKQSTGLSPHQYVMNCRIEKAKKLLVLSEETINQICQQVGFQNQSH 279
Cdd:COG2207  158 LLLLL---LLLLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSH 234

                        250       260
                 ....*....|....*....|.
gi 652337853 280 FTSVFRRLIGITPKVYREQVK 300
Cdd:COG2207  235 FSRAFKKRFGVTPSEYRKRLR 255
HTH_18 pfam12833
Helix-turn-helix domain;
219-298 2.88e-27

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 101.51  E-value: 2.88e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853  219 IAAAVGMSMYHFSRLFKQSTGLSPHQYVMNCRIEKAKKLLV-LSEETINQICQQVGFQNQSHFTSVFRRLIGITPKVYRE 297
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLeDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 652337853  298 Q 298
Cdd:pfam12833  81 R 81
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 200-298 1.67e-25

Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), contains Zn-binding and two AraC-type DNA-binding domains [Replication, recombination and repair];


Pssm-ID: 441772 [Multi-domain]  Cd Length: 358  Bit Score: 103.98  E-value: 1.67e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 200 RKAIEYINENLEQDLTLAEIAAAVGMSMYHFSRLFKQSTGLSPHQYVMNCRIEKAKKLLvLSEETINQICQQVGFQNQSH 279
Cdd:COG2169   87 ARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLL-QTGLSVTDAAYAAGFGSLSR 165

                         90
                 ....*....|....*....
gi 652337853 280 FTSVFRRLIGITPKVYREQ 298
Cdd:COG2169  166 FYEAFKKLLGMTPSAYRRG 184
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
139-298 9.11e-21

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 89.65  E-value: 9.11e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 139 ADP-LIQHIGlALKSELESDGMGSRIYIESLATTLCIHLLknystsLAKISTYSDGLSRI---QLRKAIEYINENLEQDL 214
Cdd:PRK10572 128 PDEaLQPEFS-DLFGQIEQAGQSEGRYSELLAMNLLERLL------LRCMEAIPESLHPPmdpRVREACQYISDHLASEF 200

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 215 TLAEIAAAVGMSMYHFSRLFKQSTGLSPHQYVMNCRIEKAKKLLVLSEETINQICQQVGFQNQSHFTSVFRRLIGITPKV 294
Cdd:PRK10572 201 DIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQLYFSRVFKKCTGASPSE 280


                 ....
gi 652337853 295 YREQ 298
Cdd:PRK10572 281 FRAR 284
ftrA PRK09393
transcriptional activator FtrA; Provisional
 195-298 4.78e-19

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 85.40  E-value: 4.78e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 195 SRIQLRKAIEYINENLEQDLTLAEIAAAVGMSMYHFSRLFKQSTGLSPHQYVMNCRIEKAKKLLVLSEETINQICQQVGF 274
Cdd:PRK09393 216 ESDRLGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLESSALSIDQIAERAGF 295

                         90       100
                 ....*....|....*....|....
gi 652337853 275 QNQSHFTSVFRRLIGITPKVYREQ 298
Cdd:PRK09393 296 GSEESLRHHFRRRAATSPAAYRKR 319
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 199-296 1.48e-15

YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only one protein with the YSIRK variant form of signal peptide (TIGR01168) were examined for conserved genes near that one tagged protein. This protein is found adjacent to at various classes of repetitive or low-complexity YSIRK proteins (whether unique in genome or not), in a range of species (Enterococcus faecalis X98, Ruminococcus torques, Coprobacillus sp. D7, Lysinibacillus fusiformis ZC1, Streptococcus equi subsp. equi 4047, etc). The affliated YSIRK proteins include Streptococcal protective antigen (see ) and proteins with the Rib/alpha/Esp surface antigen repeat (see TIGR02331). The last quarter of this protein has an AraC family helix-turn-helix (HTH)transcriptional regulator domain.


Pssm-ID: 274977 [Multi-domain]  Cd Length: 383  Bit Score: 76.25  E-value: 1.48e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853  199 LRKAIEYINENLEQDLTLAEIAAAVGMSMYHFSRLFKQSTGLSPHQYVMNCRIEKAKKLLvLSEETINQICQQVGFQNQS 278
Cdd:TIGR04094 287 IRAVIQYINLNLYDPLKVEEIAKQFFMSESKLRKLFKKEMGISIQEYISKRKIEEAKYLL-RSQIPVSEVSNELGFYDLS 365

                          90
                  ....*....|....*...
gi 652337853  279 HFTSVFRRLIGITPKVYR 296
Cdd:TIGR04094 366 HFSRTFKKHTGVSPKQYQ 383
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
198-298 3.90e-13

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 68.16  E-value: 3.90e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 198 QLRKAIEYINENLEQDLTLAEIAAAVGMSMYHFSRLFKQSTGLSPHQYVMNCRIEKAKKLLVLSEETINQICQQVGFQNQ 277
Cdd:PRK13503 172 RLNQLLAWLEDHFAEEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDS 251

                         90       100
                 ....*....|....*....|.
gi 652337853 278 SHFTSVFRRLIGITPKVYREQ 298
Cdd:PRK13503 252 NHFSTLFRREFSWSPRDIRQG 272
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 198-298 6.22e-13

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 67.75  E-value: 6.22e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 198 QLRKAIEYINENLEQD-LTLAEIAAAVGMSMYHFSRLFKQStGLSPHQYVMNCRIEKAKKLL--VLSEETINQICQQVGF 274
Cdd:PRK09685 198 QFQKVVALIDQSIQEEiLRPEWIAGELGISVRSLYRLFAEQ-GLVVAQYIRNRRLDRCADDLrpAADDEKITSIAYKWGF 276

                         90       100
                 ....*....|....*....|....
gi 652337853 275 QNQSHFTSVFRRLIGITPKVYREQ 298
Cdd:PRK09685 277 SDSSHFSTAFKQRFGVSPGEYRRK 300
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
203-299 8.85e-13

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 63.41  E-value: 8.85e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 203 IEYINENLEQDLTLAEIAAAVGMSMYHFSRLFKQSTGLSPHQYVMNCRIEKAKKLLVLSEETINQICQQVGFQNQSHFTS 282
Cdd:PRK10219  11 IAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQTFSR 90

                         90
                 ....*....|....*..
gi 652337853 283 VFRRLIGITPKVYREQV 299
Cdd:PRK10219  91 VFRRQFDRTPSDYRHRL 107
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
197-296 1.05e-12

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 63.97  E-value: 1.05e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 197 IQLRKAIEYINENLEQDLTLAEIAAAVGMSMYHFSRLFKQSTGLSPHQYVMNCRIEKAKKLLVLSEETINQICQQVGFQN 276
Cdd:PRK11511   9 ITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYLAERYGFES 88

                         90       100
                 ....*....|....*....|
gi 652337853 277 QSHFTSVFRRLIGITPKVYR 296
Cdd:PRK11511  89 QQTLTRTFKNYFDVPPHKYR 108
PRK10371 PRK10371
transcriptional regulator MelR;
189-296 3.92e-12

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 65.61  E-value: 3.92e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 189 TYSDGLSRIQLR---KAIEYINENLEQDLTLAEIAAAVGMSMYHFSRLFKQSTGLSPHQYVMNCRIEKAKKLLVLSEETI 265
Cdd:PRK10371 180 THKNSVSRHAQFyvsQMLGFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLSDTDKSI 259

                         90       100       110
                 ....*....|....*....|....*....|.
gi 652337853 266 NQICQQVGFQNQSHFTSVFRRLIGITPKVYR 296
Cdd:PRK10371 260 LDIALTAGFRSSSRFYSTFGKYVGMSPQQYR 290
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
211-298 1.50e-10

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 60.69  E-value: 1.50e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 211 EQ-DLTLAEIAAAVG--MSMYHF-----------SRLFKQSTGLSPHQYVMNCRIEKAKKLLVLSEETINQICQQVGFQN 276
Cdd:PRK13501 176 EQlDLIMSALQQSLGayFDMADFchknqlverslKQLFRQQTGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFED 255

                         90       100
                 ....*....|....*....|..
gi 652337853 277 QSHFTSVFRRLIGITPKVYREQ 298
Cdd:PRK13501 256 SNYFSAVFTREAGMTPRDYRQR 277
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 206-245 5.36e-10

Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the N-terminal arm of AraC binds to the DNA binding domain (pfam00165) and helps to hold the two DNA binding domains in a relative orientation that favours DNA looping. In the presence of arabinose, the arms bind over the arabinose on the dimerization domain, thus freeing the DNA-binding domains. The freed DNA-binding domains are then able to assume a conformation suitable for binding to the adjacent DNA sites that are utilized when AraC activates transcription, and hence AraC ceases looping the DNA when arabinose is added.


Pssm-ID: 425497 [Multi-domain]  Cd Length: 42  Bit Score: 53.70  E-value: 5.36e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 652337853  206 INENLEQDLTLAEIAAAVGMSMYHFSRLFKQSTGLSPHQY 245
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYTGVTPSQY 40
PRK15435 PRK15435
bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;
210-296 9.03e-10

bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;


Pssm-ID: 185333 [Multi-domain]  Cd Length: 353  Bit Score: 58.65  E-value: 9.03e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 210 LEQD--LTLAEIAAAVGMSMYHFSRLFKQSTGLSPHQYVMNCRIEKAKKLLVlSEETINQICQQVGFQNQSHFTSVFRRL 287
Cdd:PRK15435  94 LEQEtpVTLEALADQVAMSPFHLHRLFKATTGMTPKAWQQAWRARRLREALA-KGESVTTSILNAGFPDSSSYYRKADET 172


                 ....*....
gi 652337853 288 IGITPKVYR 296
Cdd:PRK15435 173 LGMTAKQFR 181
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 206-298 5.16e-09

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 56.09  E-value: 5.16e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 206 INENLEQDLTLAEIAAAVGMSMyhfSRLFK--QSTGLSPHQYVMNCRIEKAKKLLVLSEETINQICQQVGFQNQSHFTSV 283
Cdd:PRK09978 151 INNNIAHEWTLARIASELLMSP---SLLKKklREEETSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYV 227

                         90
                 ....*....|....*
gi 652337853 284 FRRLIGITPKVYREQ 298
Cdd:PRK09978 228 FRNYYGMTPTEYQER 242
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
199-296 3.77e-08

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 53.52  E-value: 3.77e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 199 LRKAIEYINENLEQDLTLAEIAAAVGMSMYHFSRLFKQSTGLSPHQYVMNCRIEKAKKLLVLSEETINQICQQVGFQNQS 278
Cdd:PRK13502 178 LDKLITALANSLECPFALDAFCQQEQCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQCGFEDSN 257

                         90
                 ....*....|....*...
gi 652337853 279 HFTSVFRRLIGITPKVYR 296
Cdd:PRK13502 258 YFSVVFTRETGMTPSQWR 275
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
162-245 3.25e-07

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 47.16  E-value: 3.25e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853   162 RIYIESLATTLCIH-------LLKNYSTSLAKIstysdgLSRIQLRKAIEYInenLEQDLTLAEIAAAVGM-SMYHFSRL 233
Cdd:smart00342   1 PLTLEDLAEALGVSprhlqrlFKKETGTTPKQY------LRDRRLERARRLL---RDTDLSVTEIALRVGFsSQSYFSRA 71

                           90
                   ....*....|..
gi 652337853   234 FKQSTGLSPHQY 245
Cdd:smart00342  72 FKKLFGVTPSEY 83
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
195-296 4.52e-07

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 50.49  E-value: 4.52e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 195 SRIQLRKAIEYINENLEQDLTLAEIAAAVGMSMYHFSRLFKQSTGLSPHQYVMNCRIEKAKKLLVLSEETINQICQQVGF 274
Cdd:PRK13500 204 SETLLDKLITRLAASLKSPFALDKFCDEASCSERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQHSRLLISDISTECGF 283

                         90       100
                 ....*....|....*....|..
gi 652337853 275 QNQSHFTSVFRRLIGITPKVYR 296
Cdd:PRK13500 284 EDSNYFSVVFTRETGMTPSQWR 305
HTH_18 pfam12833
Helix-turn-helix domain;
194-245 5.76e-07

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 46.43  E-value: 5.76e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 652337853  194 LSRIQLRKAIEYINENleQDLTLAEIAAAVGM-SMYHFSRLFKQSTGLSPHQY 245
Cdd:pfam12833  28 LRRLRLERARRLLLED--TGLSVAEIALALGFsDASHFSRAFRRLFGLTPSEY 78
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 261-296 8.53e-06

Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the N-terminal arm of AraC binds to the DNA binding domain (pfam00165) and helps to hold the two DNA binding domains in a relative orientation that favours DNA looping. In the presence of arabinose, the arms bind over the arabinose on the dimerization domain, thus freeing the DNA-binding domains. The freed DNA-binding domains are then able to assume a conformation suitable for binding to the adjacent DNA sites that are utilized when AraC activates transcription, and hence AraC ceases looping the DNA when arabinose is added.


Pssm-ID: 425497 [Multi-domain]  Cd Length: 42  Bit Score: 42.14  E-value: 8.53e-06
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 652337853  261 SEETINQICQQVGFqNQSHFTSVFRRLIGITPKVYR 296
Cdd:pfam00165   7 TNLTIADIADELGF-SRSYFSRLFKKYTGVTPSQYR 41
PRK15340 PRK15340
AraC family transcriptional regulator InvF;
215-293 6.23e-05

AraC family transcriptional regulator InvF;


Pssm-ID: 185240  Cd Length: 216  Bit Score: 43.43  E-value: 6.23e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 652337853 215 TLAEIAAAVGMSMYHFSRLFKQSTGLSPHQYVMNCRIEKAKKLLVLSEETINQICQQVGFQNQSHFTSVFRRLIGITPK 293
Cdd:PRK15340 127 TMRMLGEDYGVSYTHFRRLCSRALGGKAKSELRNWRMAQSLLNSVEGHENITQLAVNHGYSSPSHFSSEIKELIGVSPR 205
PRK15186 PRK15186
AraC family transcriptional regulator; Provisional
 206-295 6.57e-05

AraC family transcriptional regulator; Provisional


Pssm-ID: 185108 [Multi-domain]  Cd Length: 291  Bit Score: 43.90  E-value: 6.57e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 206 INENLEQDLTLAEIAAAVGMSMYHFSRLFKQSTgLSPHQYVMNCRIEKAKKLLVLSEETINQICQQVGFQNQSHFTSVFR 285
Cdd:PRK15186 190 IISDISRKWALKDISDSLYMSCSTLKRKLKQEN-TSFSEVYLNARMNKATKLLRNSEYNITRVAYMCGYDSASYFTCVFK 268

                         90
                 ....*....|
gi 652337853 286 RLIGITPKVY 295
Cdd:PRK15186 269 KHFKTTPSEF 278
PRK15044 PRK15044
transcriptional regulator SirC; Provisional
 201-292 2.33e-03

transcriptional regulator SirC; Provisional


Pssm-ID: 185004 [Multi-domain]  Cd Length: 295  Bit Score: 38.86  E-value: 2.33e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 201 KAIEYINENLEQDLTLAEIAAAVGMSMYHFSRLFKqSTGLSPHQYVMNCRIEKAKKLLVLSEETINQICQQVGFQNQSHF 280
Cdd:PRK15044 196 KVYNIIISDLTRKWSQAEVAGKLFMSVSSLKRKLA-AEEVSFSKIYLDARMNQAIKLLRMGAGNISQVATMCGYDTPSYF 274

                         90
                 ....*....|..
gi 652337853 281 TSVFRRLIGITP 292
Cdd:PRK15044 275 IAIFKRHFKITP 286
PRK09940 PRK09940
transcriptional regulator YdeO; Provisional
 206-293 4.53e-03

transcriptional regulator YdeO; Provisional


Pssm-ID: 182157 [Multi-domain]  Cd Length: 253  Bit Score: 37.76  E-value: 4.53e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 652337853 206 INENLEQDLTLAEIAAAVGMSMYHFSRLFKQSTgLSPHQYVMNCRIEKAKKLLVLsEETINQICQQVGFQNQSHFTSVFR 285
Cdd:PRK09940 143 VNMKLAHPWKLKDICDCLYISESLLKKKLKQEQ-TTFSQILLDARMQHAKNLIRV-EGSVNKIAEQCGYASTSYFIYAFR 220


                 ....*...
gi 652337853 286 RLIGITPK 293
Cdd:PRK09940 221 KHFGNSPK 228
 
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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