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Conserved domains on  [gi|446466346|ref|WP_000544200|]
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MULTISPECIES: helix-turn-helix transcriptional regulator [Bacillus]

Protein Classification

helix-turn-helix transcriptional regulator( domain architecture ID 12204063)

helix-turn-helix (HTH) transcriptional regulator containing an AraC family DNA-binding HTH domain controls the expression of genes with diverse biological functions including metabolism, stress response, and virulence

CATH:  1.10.10.1310
Gene Ontology:  GO:0006355|GO:0043565|GO:0003700
PubMed:  2644244|15808743|8831795
SCOP:  4000332

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
23-106 5.02e-30

helix_turn_helix, arabinose operon control protein;


:

Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 108.79  E-value: 5.02e-30
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446466346    23 ELTTERVASHSAVSMYHFHRIFQRYVGMSVTDYIRKRRLTHAAQVLVSTERAVIDIALQYGFSSQEAFTRAFKRMFQLPP 102
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 446466346   103 KKYR 106
Cdd:smart00342  81 SEYR 84
 
Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
23-106 5.02e-30

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 108.79  E-value: 5.02e-30
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446466346    23 ELTTERVASHSAVSMYHFHRIFQRYVGMSVTDYIRKRRLTHAAQVLVSTERAVIDIALQYGFSSQEAFTRAFKRMFQLPP 102
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 446466346   103 KKYR 106
Cdd:smart00342  81 SEYR 84
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 7-111 3.00e-28

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: 110.63  E-value: 3.00e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446466346   7 EIIKKSIEYIENHLHEELTTERVASHSAVSMYHFHRIFQRYVGMSVTDYIRKRRLTHAAQVLVSTERAVIDIALQYGFSS 86
Cdd:COG4977  210 PRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGS 289

                         90       100
                 ....*....|....*....|....*
gi 446466346  87 QEAFTRAFKRMFQLPPKKYRKYFQS 111
Cdd:COG4977  290 ASHFRRAFRRRFGVSPSAYRRRFRA 314
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
1-106 1.73e-26

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 100.38  E-value: 1.73e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446466346   1 MHEEykeIIKKSIEYIENHLHEELTTERVASHSAVSMYHFHRIFQRYVGMSVTDYIRKRRLTHAAQVLVSTERAVIDIAL 80
Cdd:PRK10219   2 SHQK---IIQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAM 78

                         90       100
                 ....*....|....*....|....*.
gi 446466346  81 QYGFSSQEAFTRAFKRMFQLPPKKYR 106
Cdd:PRK10219  79 DLGYVSQQTFSRVFRRQFDRTPSDYR 104
HTH_18 pfam12833
Helix-turn-helix domain;
29-107 1.57e-24

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 94.19  E-value: 1.57e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446466346   29 VASHSAVSMYHFHRIFQRYVGMSVTDYIRKRRLTHAAQVLV-STERAVIDIALQYGFSSQEAFTRAFKRMFQLPPKKYRK 107
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLeDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
 
Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
23-106 5.02e-30

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 108.79  E-value: 5.02e-30
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446466346    23 ELTTERVASHSAVSMYHFHRIFQRYVGMSVTDYIRKRRLTHAAQVLVSTERAVIDIALQYGFSSQEAFTRAFKRMFQLPP 102
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 446466346   103 KKYR 106
Cdd:smart00342  81 SEYR 84
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 7-111 3.00e-28

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: 110.63  E-value: 3.00e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446466346   7 EIIKKSIEYIENHLHEELTTERVASHSAVSMYHFHRIFQRYVGMSVTDYIRKRRLTHAAQVLVSTERAVIDIALQYGFSS 86
Cdd:COG4977  210 PRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGS 289

                         90       100
                 ....*....|....*....|....*
gi 446466346  87 QEAFTRAFKRMFQLPPKKYRKYFQS 111
Cdd:COG4977  290 ASHFRRAFRRRFGVSPSAYRRRFRA 314
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
16-107 3.20e-27

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 106.79  E-value: 3.20e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446466346  16 IENHLHEELTTERVASHSAVSMYHFHRIFQRYVGMSVTDYIRKRRLTHAAQVLVSTERAVIDIALQYGFSSQEAFTRAFK 95
Cdd:COG2207  161 LLLLLLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFK 240

                         90
                 ....*....|..
gi 446466346  96 RMFQLPPKKYRK 107
Cdd:COG2207  241 KRFGVTPSEYRK 252
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
1-106 1.73e-26

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 100.38  E-value: 1.73e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446466346   1 MHEEykeIIKKSIEYIENHLHEELTTERVASHSAVSMYHFHRIFQRYVGMSVTDYIRKRRLTHAAQVLVSTERAVIDIAL 80
Cdd:PRK10219   2 SHQK---IIQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAM 78

                         90       100
                 ....*....|....*....|....*.
gi 446466346  81 QYGFSSQEAFTRAFKRMFQLPPKKYR 106
Cdd:PRK10219  79 DLGYVSQQTFSRVFRRQFDRTPSDYR 104
PRK15121 PRK15121
MDR efflux pump AcrAB transcriptional activator RobA;
8-107 3.29e-25

MDR efflux pump AcrAB transcriptional activator RobA;


Pssm-ID: 185076 [Multi-domain]  Cd Length: 289  Bit Score: 102.01  E-value: 3.29e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446466346   8 IIKKSIEYIENHLHEELTTERVASHSAVSMYHFHRIFQRYVGMSVTDYIRKRRLTHAAQVLVSTERAVIDIALQYGFSSQ 87
Cdd:PRK15121   6 IIRDLLIWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGHAIGAYIRARRLSKAAVALRLTSRPILDIALQYRFDSQ 85

                         90       100
                 ....*....|....*....|
gi 446466346  88 EAFTRAFKRMFQLPPKKYRK 107
Cdd:PRK15121  86 QTFTRAFKKQFAQTPALYRR 105
HTH_18 pfam12833
Helix-turn-helix domain;
29-107 1.57e-24

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 94.19  E-value: 1.57e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446466346   29 VASHSAVSMYHFHRIFQRYVGMSVTDYIRKRRLTHAAQVLV-STERAVIDIALQYGFSSQEAFTRAFKRMFQLPPKKYRK 107
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLeDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 7-107 2.61e-21

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: 92.42  E-value: 2.61e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446466346   7 EIIKKSIEYIENHLHEELTTERVASHSAVSMYHFHRIFQRYVGMSVTDYIRKRRLtHAAQVLVSTERAVIDIALQYGFSS 86
Cdd:COG2169   84 DLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRL-LRARQLLQTGLSVTDAAYAAGFGS 162

                         90       100
                 ....*....|....*....|.
gi 446466346  87 QEAFTRAFKRMFQLPPKKYRK 107
Cdd:COG2169  163 LSRFYEAFKKLLGMTPSAYRR 183
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
9-106 4.44e-21

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 86.69  E-value: 4.44e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446466346   9 IKKSIEYIENHLHEELTTERVASHSAVSMYHFHRIFQRYVGMSVTDYIRKRRLTHAAQVLVSTERAVIDIALQYGFSSQE 88
Cdd:PRK11511  11 IHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYLAERYGFESQQ 90

                         90
                 ....*....|....*...
gi 446466346  89 AFTRAFKRMFQLPPKKYR 106
Cdd:PRK11511  91 TLTRTFKNYFDVPPHKYR 108
PRK10371 PRK10371
transcriptional regulator MelR;
9-107 1.26e-17

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 81.40  E-value: 1.26e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446466346   9 IKKSIEYIENHLHEELTTERVASHSAVSMYHFHRIFQRYVGMSVTDYIRKRRLTHAAQVLVSTERAVIDIALQYGFSSQE 88
Cdd:PRK10371 193 VSQMLGFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLSDTDKSILDIALTAGFRSSS 272

                         90
                 ....*....|....*....
gi 446466346  89 AFTRAFKRMFQLPPKKYRK 107
Cdd:PRK10371 273 RFYSTFGKYVGMSPQQYRK 291
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 11-110 2.77e-16

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 77.38  E-value: 2.77e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446466346  11 KSIEYIENHLHEE-LTTERVASHSAVSMYHFHRIFQRYvGMSVTDYIRKRRLTHAAQVL--VSTERAVIDIALQYGFSSQ 87
Cdd:PRK09685 201 KVVALIDQSIQEEiLRPEWIAGELGISVRSLYRLFAEQ-GLVVAQYIRNRRLDRCADDLrpAADDEKITSIAYKWGFSDS 279

                         90       100
                 ....*....|....*....|...
gi 446466346  88 EAFTRAFKRMFQLPPKKYRKYFQ 110
Cdd:PRK09685 280 SHFSTAFKQRFGVSPGEYRRKFR 302
ftrA PRK09393
transcriptional activator FtrA; Provisional
 13-109 3.01e-16

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 77.70  E-value: 3.01e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446466346  13 IEYIENHLHEELTTERVASHSAVSMYHFHRIFQRYVGMSVTDYIRKRRLTHAAQVLVSTERAVIDIALQYGFSSQEAFTR 92
Cdd:PRK09393 224 IDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLESSALSIDQIAERAGFGSEESLRH 303

                         90
                 ....*....|....*..
gi 446466346  93 AFKRMFQLPPKKYRKYF 109
Cdd:PRK09393 304 HFRRRAATSPAAYRKRF 320
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
15-107 9.53e-11

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 61.14  E-value: 9.53e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446466346  15 YIENHLHEELTTERVASHSAVSMYHFHRIFQRYVGMSVTDYIRKRRLTHAAQVLVSTERAVIDIALQYGFSSQEAFTRAF 94
Cdd:PRK10572 191 YISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQLYFSRVF 270

                         90
                 ....*....|...
gi 446466346  95 KRMFQLPPKKYRK 107
Cdd:PRK10572 271 KKCTGASPSEFRA 283
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
13-106 1.60e-10

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 60.46  E-value: 1.60e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446466346  13 IEYIENHLHEELTTERVASHSAVSMYHFHRIFQRYVGMSVTDYIRKRRLTHAAQVLVSTERAVIDIALQYGFSSQEAFTR 92
Cdd:PRK13503 177 LAWLEDHFAEEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDSNHFST 256

                         90
                 ....*....|....
gi 446466346  93 AFKRMFQLPPKKYR 106
Cdd:PRK13503 257 LFRREFSWSPRDIR 270
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 16-57 1.10e-08

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: 50.23  E-value: 1.10e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 446466346   16 IENHLHEELTTERVASHSAVSMYHFHRIFQRYVGMSVTDYIR 57
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYTGVTPSQYRH 42
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
42-109 7.59e-07

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 49.52  E-value: 7.59e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 446466346  42 RIFQRYVGMSVTDYIRKRRLTHAAQVLVSTERAVIDIALQYGFSSQEAFTRAFKRMFQLPPKKYRKYF 109
Cdd:PRK13501 211 QLFRQQTGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFSAVFTREAGMTPRDYRQRF 278
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
5-106 1.79e-06

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 48.51  E-value: 1.79e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446466346   5 YKEIIKKSIEYIENHLHEELTTERVASHSAVSMYHFHRIFQRYVGMSVTDYIRKRRLTHAAQVLVSTERAVIDIALQYGF 84
Cdd:PRK13502 174 RETLLDKLITALANSLECPFALDAFCQQEQCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQCGF 253

                         90       100
                 ....*....|....*....|..
gi 446466346  85 SSQEAFTRAFKRMFQLPPKKYR 106
Cdd:PRK13502 254 EDSNYFSVVFTRETGMTPSQWR 275
PRK15435 PRK15435
bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;
24-107 4.41e-06

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


Pssm-ID: 185333 [Multi-domain]  Cd Length: 353  Bit Score: 47.48  E-value: 4.41e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446466346  24 LTTERVASHSAVSMYHFHRIFQRYVGMSVTDY---IRKRRLTHAaqvlVSTERAVIDIALQYGFSSQEAFTRAFKRMFQL 100
Cdd:PRK15435 100 VTLEALADQVAMSPFHLHRLFKATTGMTPKAWqqaWRARRLREA----LAKGESVTTSILNAGFPDSSSYYRKADETLGM 175


                 ....*..
gi 446466346 101 PPKKYRK 107
Cdd:PRK15435 176 TAKQFRH 182
PRK10296 PRK10296
DNA-binding transcriptional regulator ChbR; Provisional
 33-112 2.06e-05

DNA-binding transcriptional regulator ChbR; Provisional


Pssm-ID: 182362 [Multi-domain]  Cd Length: 278  Bit Score: 45.13  E-value: 2.06e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446466346  33 SAVSMYHFHRIFQRYVGMSVTDYIRKRRLTHAAQVLVSTERAVIDIALQYGFSSQEAFTRAFKRMFQLPPKKYRKYFQSF 112
Cdd:PRK10296 198 SGKSQEYLTRATRRYYGKTPMQIINEIRINFAKKQLEMTNYSVTDIAFEAGYSSPSLFIKTFKKLTSFTPGSYRKKLTEF 277
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
8-106 5.78e-05

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 43.94  E-value: 5.78e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446466346   8 IIKKSIEYIENHLHEELTTERVASHSAVSMYHFHRIFQRYVGMSVTDYIRKRRLTHAAQVLVSTERAVIDIALQYGFSSQ 87
Cdd:PRK13500 207 LLDKLITRLAASLKSPFALDKFCDEASCSERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQHSRLLISDISTECGFEDS 286

                         90
                 ....*....|....*....
gi 446466346  88 EAFTRAFKRMFQLPPKKYR 106
Cdd:PRK13500 287 NYFSVVFTRETGMTPSQWR 305
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 70-107 1.06e-03

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: 35.98  E-value: 1.06e-03
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 446466346   70 STERAVIDIALQYGFSSQeAFTRAFKRMFQLPPKKYRK 107
Cdd:pfam00165   6 STNLTIADIADELGFSRS-YFSRLFKKYTGVTPSQYRH 42
PRK10130 PRK10130
HTH-type transcriptional regulator EutR;
2-102 7.48e-03

HTH-type transcriptional regulator EutR;


Pssm-ID: 182258 [Multi-domain]  Cd Length: 350  Bit Score: 37.59  E-value: 7.48e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446466346   2 HEEYKEIIKKSIEYIENHLHEELTTERVASHSAVSMYHFHRIFQRYVGMSVTDYIRKRRLTHAAQVLV---STERAVIDI 78
Cdd:PRK10130 235 HQSYRRLLSRAREYVLENMSEPVTVLDLCNQLHVSRRTLQNAFHAILGIGPNAWLKRIRLNAVRRELIspwSQSTTVKDA 314

                         90       100
                 ....*....|....*....|....
gi 446466346  79 ALQYGFSSQEAFTRAFKRMFQLPP 102
Cdd:PRK10130 315 AMQWGFWHLGQFATDYQQLFAEKP 338
 
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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