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Conserved domains on  [gi|1130950418|ref|WP_075715215|]
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helix-turn-helix transcriptional regulator [Vibrio panuliri]

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;
236-318 1.14e-24

helix_turn_helix, arabinose operon control protein;


:

Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 95.31  E-value: 1.14e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1130950418  236 NLSLEQLSQQFSMSISKLQRQFKQALNITVNGYIRFRRLEIAYNHLQRGLVSITEAAYEAGYQHPANFTHAFKREFGMTP 315
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ...
gi 1130950418  316 HEL 318
Cdd:smart00342  81 SEY 83
 
Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
236-318 1.14e-24

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 95.31  E-value: 1.14e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1130950418  236 NLSLEQLSQQFSMSISKLQRQFKQALNITVNGYIRFRRLEIAYNHLQRGLVSITEAAYEAGYQHPANFTHAFKREFGMTP 315
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ...
gi 1130950418  316 HEL 318
Cdd:smart00342  81 SEY 83
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
229-323 5.73e-24

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 98.70  E-value: 5.73e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1130950418 229 IETHLDSNLSLEQLSQQFSMSISKLQRQFKQALNITVNGYIRFRRLEIAYNHLQRGLVSITEAAYEAGYQHPANFTHAFK 308
Cdd:COG2207   161 LLLLLLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFK 240

                          90
                  ....*....|....*
gi 1130950418 309 REFGMTPHELVRRSH 323
Cdd:COG2207   241 KRFGVTPSEYRKRLR 255
HTH_18 pfam12833
Helix-turn-helix domain;
242-321 3.83e-21

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 85.72  E-value: 3.83e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1130950418 242 LSQQFSMSISKLQRQFKQALNITVNGYIRFRRLEIAYNHL-QRGLVSITEAAYEAGYQHPANFTHAFKREFGMTPHELVR 320
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLlEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 1130950418 321 R 321
Cdd:pfam12833  81 R 81
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
225-315 4.07e-12

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 61.86  E-value: 4.07e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1130950418 225 IVSYIETHLDSNLSLEQLSQQFSMSISKLQRQFKQALNITVNGYIRFRRLEIAYNHLQRGLVSITEAAYEAGYQHPANFT 304
Cdd:PRK10219   10 LIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQTFS 89

                          90
                  ....*....|.
gi 1130950418 305 HAFKREFGMTP 315
Cdd:PRK10219   90 RVFRRQFDRTP 100
 
Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
236-318 1.14e-24

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 95.31  E-value: 1.14e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1130950418  236 NLSLEQLSQQFSMSISKLQRQFKQALNITVNGYIRFRRLEIAYNHLQRGLVSITEAAYEAGYQHPANFTHAFKREFGMTP 315
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ...
gi 1130950418  316 HEL 318
Cdd:smart00342  81 SEY 83
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
229-323 5.73e-24

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 98.70  E-value: 5.73e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1130950418 229 IETHLDSNLSLEQLSQQFSMSISKLQRQFKQALNITVNGYIRFRRLEIAYNHLQRGLVSITEAAYEAGYQHPANFTHAFK 308
Cdd:COG2207   161 LLLLLLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFK 240

                          90
                  ....*....|....*
gi 1130950418 309 REFGMTPHELVRRSH 323
Cdd:COG2207   241 KRFGVTPSEYRKRLR 255
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 222-323 3.23e-23

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: 97.54  E-value: 3.23e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1130950418 222 VADIVSYIETHLDSNLSLEQLSQQFSMSISKLQRQFKQALNITVNGYIRFRRLEIAYNHLQRGLVSITEAAYEAGYQHPA 301
Cdd:COG4977   212 LARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSAS 291

                          90       100
                  ....*....|....*....|..
gi 1130950418 302 NFTHAFKREFGMTPHELvRRSH 323
Cdd:COG4977   292 HFRRAFRRRFGVSPSAY-RRRF 312
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 207-323 1.52e-22

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: 96.28  E-value: 1.52e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1130950418 207 PLIASPSEESnsEIQVADIVSYIETHLDSNLSLEQLSQQFSMSISKLQRQFKQALNITVNGYIRFRRLEIAYNHLQRGLv 286
Cdd:COG2169    73 PDLAPGSPPR--ADLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLLQTGL- 149

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1130950418 287 SITEAAYEAGYQHPANFTHAFKREFGMTPHELvRRSH 323
Cdd:COG2169   150 SVTDAAYAAGFGSLSRFYEAFKKLLGMTPSAY-RRGG 185
HTH_18 pfam12833
Helix-turn-helix domain;
242-321 3.83e-21

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 85.72  E-value: 3.83e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1130950418 242 LSQQFSMSISKLQRQFKQALNITVNGYIRFRRLEIAYNHL-QRGLVSITEAAYEAGYQHPANFTHAFKREFGMTPHELVR 320
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLlEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 1130950418 321 R 321
Cdd:pfam12833  81 R 81
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
225-315 4.07e-12

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 61.86  E-value: 4.07e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1130950418 225 IVSYIETHLDSNLSLEQLSQQFSMSISKLQRQFKQALNITVNGYIRFRRLEIAYNHLQRGLVSITEAAYEAGYQHPANFT 304
Cdd:PRK10219   10 LIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQTFS 89

                          90
                  ....*....|.
gi 1130950418 305 HAFKREFGMTP 315
Cdd:PRK10219   90 RVFRRQFDRTP 100
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
217-318 6.68e-11

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 62.00  E-value: 6.68e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1130950418 217 NSEIQVADIVSYIETHLDSNLSLEQLSQQFSMSISKLQRQFKQALNITVNGYIRFRRLEIAYNHLQRGLVSITEAAYEAG 296
Cdd:PRK13503  168 NSDARLNQLLAWLEDHFAEEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCG 247

                          90       100
                  ....*....|....*....|..
gi 1130950418 297 YQHPANFTHAFKREFGMTPHEL 318
Cdd:PRK13503  248 FGDSNHFSTLFRREFSWSPRDI 269
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
213-317 2.61e-10

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 57.42  E-value: 2.61e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1130950418 213 SEESNSEIQVADIVSYIETHLDSNLSLEQLSQQFSMSISKLQRQFKQALNITVNGYIRFRRLEIAYNHLQRGLVSITEAA 292
Cdd:PRK11511    2 SRRNTDAITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYLA 81

                          90       100
                  ....*....|....*....|....*
gi 1130950418 293 YEAGYQHPANFTHAFKREFGMTPHE 317
Cdd:PRK11511   82 ERYGFESQQTLTRTFKNYFDVPPHK 106
ftrA PRK09393
transcriptional activator FtrA; Provisional
 223-321 4.42e-09

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 56.90  E-value: 4.42e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1130950418 223 ADIVSYIETHLDSNLSLEQLSQQFSMSISKLQRQFKQALNITVNGYIRFRRLEIAYNHLQRGLVSITEAAYEAGYQHPAN 302
Cdd:PRK09393  221 GPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLESSALSIDQIAERAGFGSEES 300

                          90
                  ....*....|....*....
gi 1130950418 303 FTHAFKREFGMTPHELVRR 321
Cdd:PRK09393  301 LRHHFRRRAATSPAAYRKR 319
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 227-323 5.09e-09

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 56.58  E-value: 5.09e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1130950418 227 SYIETHLDSNLSLEQLS-----QQFSMSISKLQRQFKQAlNITVNGYIRFRRLEIAYNHLQRGLV--SITEAAYEAGYQH 299
Cdd:PRK09685  200 QKVVALIDQSIQEEILRpewiaGELGISVRSLYRLFAEQ-GLVVAQYIRNRRLDRCADDLRPAADdeKITSIAYKWGFSD 278

                          90       100
                  ....*....|....*....|....
gi 1130950418 300 PANFTHAFKREFGMTPHELvRRSH 323
Cdd:PRK09685  279 SSHFSTAFKQRFGVSPGEY-RRKF 301
PRK15121 PRK15121
MDR efflux pump AcrAB transcriptional activator RobA;
224-322 9.93e-09

MDR efflux pump AcrAB transcriptional activator RobA;


Pssm-ID: 185076 [Multi-domain]  Cd Length: 289  Bit Score: 55.40  E-value: 9.93e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1130950418 224 DIVSYIETHLDSNLSLEQLSQQFSMSISKLQRQFKQALNITVNGYIRFRRLEIAYNHLQrgLVS--ITEAAYEAGYQHPA 301
Cdd:PRK15121    9 DLLIWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGHAIGAYIRARRLSKAAVALR--LTSrpILDIALQYRFDSQQ 86

                          90       100
                  ....*....|....*....|.
gi 1130950418 302 NFTHAFKREFGMTPhELVRRS 322
Cdd:PRK15121   87 TFTRAFKKQFAQTP-ALYRRS 106
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
216-317 2.05e-08

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 54.68  E-value: 2.05e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1130950418 216 SNSEIQVADIVSYIETHLDSNLSLEQLSQQFSMSISKLQRQFKQALNITVNGYIRFRRLEIAYNHLQRGLVSITEAAYEA 295
Cdd:PRK13502  172 TSRETLLDKLITALANSLECPFALDAFCQQEQCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQC 251

                          90       100
                  ....*....|....*....|..
gi 1130950418 296 GYQHPANFTHAFKREFGMTPHE 317
Cdd:PRK13502  252 GFEDSNYFSVVFTRETGMTPSQ 273
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
208-322 2.08e-08

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 54.59  E-value: 2.08e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1130950418 208 LIASPSEESNSEIQVAD-----IVSYIETHLDSNLSLEQLSQQFSMSISKLQRQFKQALNITVngyIRFR---RLEIAYN 279
Cdd:PRK10572  166 LLRCMEAIPESLHPPMDprvreACQYISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISV---LRWRedqRISRAKL 242

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 1130950418 280 HLQRGLVSITEAAYEAGYQHPANFTHAFKREFGMTPHELVRRS 322
Cdd:PRK10572  243 LLQTTRMPIATIGRNVGYDDQLYFSRVFKKCTGASPSEFRARC 285
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
216-317 5.57e-08

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 53.57  E-value: 5.57e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1130950418 216 SNSEIQVADIVSYIETHLDSNLSLEQLSQQFSMSISKLQRQFKQALNITVNGYIRFRRLEIAYNHLQRGLVSITEAAYEA 295
Cdd:PRK13500  202 TSSETLLDKLITRLAASLKSPFALDKFCDEASCSERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQHSRLLISDISTEC 281

                          90       100
                  ....*....|....*....|..
gi 1130950418 296 GYQHPANFTHAFKREFGMTPHE 317
Cdd:PRK13500  282 GFEDSNYFSVVFTRETGMTPSQ 303
PRK15435 PRK15435
bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;
234-320 2.10e-05

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


Pssm-ID: 185333 [Multi-domain]  Cd Length: 353  Bit Score: 45.55  E-value: 2.10e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1130950418 234 DSNLSLEQLSQQFSMSISKLQRQFKQALNITVNGY---IRFRRLEIAynhLQRGLvSITEAAYEAGYQHPANFTHAFKRE 310
Cdd:PRK15435   97 ETPVTLEALADQVAMSPFHLHRLFKATTGMTPKAWqqaWRARRLREA---LAKGE-SVTTSILNAGFPDSSSYYRKADET 172

                          90
                  ....*....|
gi 1130950418 311 FGMTPHELVR 320
Cdd:PRK15435  173 LGMTAKQFRH 182
PRK15186 PRK15186
AraC family transcriptional regulator; Provisional
 189-319 4.89e-05

AraC family transcriptional regulator; Provisional


Pssm-ID: 185108 [Multi-domain]  Cd Length: 291  Bit Score: 44.29  E-value: 4.89e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1130950418 189 ESLTHQIIAECLKQTPKLPLIASPSEESNSEiqvaDIVSYIETHLDSNLSLEQLSQQFSMSISKLQRQFKQALNITVNGY 268
Cdd:PRK15186  154 EYLIRFLLSEFIYEPEAFALFRELSQNTLAE----NIYNIIISDISRKWALKDISDSLYMSCSTLKRKLKQENTSFSEVY 229

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1130950418 269 IRfRRLEIAYNHLQRGLVSITEAAYEAGYQHPANFTHAFKREFGMTPHELV 319
Cdd:PRK15186  230 LN-ARMNKATKLLRNSEYNITRVAYMCGYDSASYFTCVFKKHFKTTPSEFL 279
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 229-270 5.60e-05

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: 39.83  E-value: 5.60e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1130950418 229 IETHLDSNLSLEQLSQQFSMSISKLQRQFKQALNITVNGYIR 270
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYTGVTPSQYRH 42
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
221-321 7.82e-05

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 43.74  E-value: 7.82e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1130950418 221 QVADIVSYIETHLDSNLSLEQLSQQFSMSISKLQRQFKQALNITVNGYIRFRRLEIAYNHLQRGLVSITEAAYEAGYQHP 300
Cdd:PRK13501  177 QLDLIMSALQQSLGAYFDMADFCHKNQLVERSLKQLFRQQTGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDS 256

                          90       100
                  ....*....|....*....|.
gi 1130950418 301 ANFTHAFKREFGMTPHELVRR 321
Cdd:PRK13501  257 NYFSAVFTREAGMTPRDYRQR 277
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 279-320 1.56e-04

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: 38.67  E-value: 1.56e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1130950418 279 NHLQRGLvSITEAAYEAGYqHPANFTHAFKREFGMTPHELVR 320
Cdd:pfam00165   3 ENLSTNL-TIADIADELGF-SRSYFSRLFKKYTGVTPSQYRH 42
PRK15340 PRK15340
AraC family transcriptional regulator InvF;
225-318 2.82e-03

AraC family transcriptional regulator InvF;


Pssm-ID: 185240  Cd Length: 216  Bit Score: 38.42  E-value: 2.82e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1130950418 225 IVSYIETHLDSNLSLEQLSQQFSMSISKLQRQFKQALNITVNGYIRFRRLEIAYNHLQRGLVSITEAAYEAGYQHPANFT 304
Cdd:PRK15340  114 LVGYLLAQSTSGNTMRMLGEDYGVSYTHFRRLCSRALGGKAKSELRNWRMAQSLLNSVEGHENITQLAVNHGYSSPSHFS 193

                          90
                  ....*....|....
gi 1130950418 305 HAFKREFGMTPHEL 318
Cdd:PRK15340  194 SEIKELIGVSPRKL 207
PRK10371 PRK10371
transcriptional regulator MelR;
222-317 5.14e-03

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 38.26  E-value: 5.14e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1130950418 222 VADIVSYIETHLDSNLSLEQLSQQFSMSISKLQRQFKQALNITVNGYIRFRRLeiayNHLqRGLVS-----ITEAAYEAG 296
Cdd:PRK10371  193 VSQMLGFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRI----NHV-RALLSdtdksILDIALTAG 267

                          90       100
                  ....*....|....*....|.
gi 1130950418 297 YQHPANFTHAFKREFGMTPHE 317
Cdd:PRK10371  268 FRSSSRFYSTFGKYVGMSPQQ 288
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
286-321 8.48e-03

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 34.84  E-value: 8.48e-03
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 1130950418  286 VSITEAAYEAGYqHPANFTHAFKREFGMTPHELVRR 321
Cdd:smart00342   2 LTLEDLAEALGV-SPRHLQRLFKKETGTTPKQYLRD 36
PRK15044 PRK15044
transcriptional regulator SirC; Provisional
 225-320 9.75e-03

transcriptional regulator SirC; Provisional


Pssm-ID: 185004 [Multi-domain]  Cd Length: 295  Bit Score: 37.32  E-value: 9.75e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1130950418 225 IVSYIETHLDSNLSLEQLSQQFSMSISKLQRQFKqALNITVNGYIRFRRLEIAYNHLQRGLVSITEAAYEAGYQHPANFT 304
Cdd:PRK15044  197 VYNIIISDLTRKWSQAEVAGKLFMSVSSLKRKLA-AEEVSFSKIYLDARMNQAIKLLRMGAGNISQVATMCGYDTPSYFI 275

                          90
                  ....*....|....*.
gi 1130950418 305 HAFKREFGMTPHELVR 320
Cdd:PRK15044  276 AIFKRHFKITPLSFMR 291
 
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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