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Conserved domains on  [gi|667705091|gb|KFA57940|]
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hypothetical protein HMPREF1632_00090 [Mageeibacillus indolicus 0009-5]

Protein Classification

helix-turn-helix transcriptional regulator( domain architecture ID 11454547)

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:0003700|GO:0043565|GO:0006355
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;
135-218 3.74e-24

helix_turn_helix, arabinose operon control protein;


:

Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 91.46  E-value: 3.74e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091   135 PLTLREIADQVYLSRSYLSSIFKETMGENIKDFIYRERMRTAQNLLLSTDVGVQEISCRCGYQSFAYFSASFRRYCHMSP 214
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80

                   ....
gi 667705091   215 TSFR 218
Cdd:smart00342  81 SEYR 84
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
6-221 2.34e-20

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


:

Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 86.37  E-value: 2.34e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091   6 TDVADERLYRFQEICQLTIRGREKEAYRKMVQQALFIKGGGEEVRLFRVFLNAMNQAHYHILLYTFEASFHQLCYRHGIL 85
Cdd:COG2207   35 VLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLLALLALLLLVGLLLLLLLLLLLLLLLLLLLLL 114
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091  86 FHEVENWNEFLRVGKQIINNYAAAANSIHNRYKGAINTVINYIRENIDR----PLTLREIADQVYLSRSYLSSIFKETMG 161
Cdd:COG2207  115 LLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLllllLLTLEELARELGLSPRTLSRLFKEETG 194
                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091 162 ENIKDFIYRERMRTAQNLLLSTDVGVQEISCRCGYQSFAYFSASFRRYCHMSPTSFRQRA 221
Cdd:COG2207  195 TSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKRL 254
 
Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
135-218 3.74e-24

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 91.46  E-value: 3.74e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091   135 PLTLREIADQVYLSRSYLSSIFKETMGENIKDFIYRERMRTAQNLLLSTDVGVQEISCRCGYQSFAYFSASFRRYCHMSP 214
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80

                   ....
gi 667705091   215 TSFR 218
Cdd:smart00342  81 SEYR 84
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
120-220 2.23e-21

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: 89.83  E-value: 2.23e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091 120 AINTVINYIRENIDRPLTLREIADQVYLSRSYLSSIFKETMGENIKDFIYRERMRTAQNLLLSTDVGVQEISCRCGYQSF 199
Cdd:COG4977  211 RLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSA 290
                         90       100
                 ....*....|....*....|.
gi 667705091 200 AYFSASFRRYCHMSPTSFRQR 220
Cdd:COG4977  291 SHFRRAFRRRFGVSPSAYRRR 311
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
6-221 2.34e-20

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 86.37  E-value: 2.34e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091   6 TDVADERLYRFQEICQLTIRGREKEAYRKMVQQALFIKGGGEEVRLFRVFLNAMNQAHYHILLYTFEASFHQLCYRHGIL 85
Cdd:COG2207   35 VLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLLALLALLLLVGLLLLLLLLLLLLLLLLLLLLL 114
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091  86 FHEVENWNEFLRVGKQIINNYAAAANSIHNRYKGAINTVINYIRENIDR----PLTLREIADQVYLSRSYLSSIFKETMG 161
Cdd:COG2207  115 LLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLllllLLTLEELARELGLSPRTLSRLFKEETG 194
                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091 162 ENIKDFIYRERMRTAQNLLLSTDVGVQEISCRCGYQSFAYFSASFRRYCHMSPTSFRQRA 221
Cdd:COG2207  195 TSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKRL 254
HTH_18 pfam12833
Helix-turn-helix domain;
141-220 1.99e-18

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 76.47  E-value: 1.99e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091  141 IADQVYLSRSYLSSIFKETMGENIKDFIYRERMRTAQNLLL-STDVGVQEISCRCGYQSFAYFSASFRRYCHMSPTSFRQ 219
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLeDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80

                  .
gi 667705091  220 R 220
Cdd:pfam12833  81 R 81
PRK10371 PRK10371
transcriptional regulator MelR;
111-219 1.37e-14

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 71.00  E-value: 1.37e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091 111 NSIHNRYKGAINTVINYIRENIDRPLTLREIADQVYLSRSYLSSIFKETMGENIKDFIYRERMRTAQNLLLSTDVGVQEI 190
Cdd:PRK10371 183 NSVSRHAQFYVSQMLGFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLSDTDKSILDI 262
                         90       100
                 ....*....|....*....|....*....
gi 667705091 191 SCRCGYQSFAYFSASFRRYCHMSPTSFRQ 219
Cdd:PRK10371 263 ALTAGFRSSSRFYSTFGKYVGMSPQQYRK 291
 
Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
135-218 3.74e-24

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 91.46  E-value: 3.74e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091   135 PLTLREIADQVYLSRSYLSSIFKETMGENIKDFIYRERMRTAQNLLLSTDVGVQEISCRCGYQSFAYFSASFRRYCHMSP 214
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80

                   ....
gi 667705091   215 TSFR 218
Cdd:smart00342  81 SEYR 84
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
120-220 2.23e-21

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: 89.83  E-value: 2.23e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091 120 AINTVINYIRENIDRPLTLREIADQVYLSRSYLSSIFKETMGENIKDFIYRERMRTAQNLLLSTDVGVQEISCRCGYQSF 199
Cdd:COG4977  211 RLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSA 290
                         90       100
                 ....*....|....*....|.
gi 667705091 200 AYFSASFRRYCHMSPTSFRQR 220
Cdd:COG4977  291 SHFRRAFRRRFGVSPSAYRRR 311
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
6-221 2.34e-20

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 86.37  E-value: 2.34e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091   6 TDVADERLYRFQEICQLTIRGREKEAYRKMVQQALFIKGGGEEVRLFRVFLNAMNQAHYHILLYTFEASFHQLCYRHGIL 85
Cdd:COG2207   35 VLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLLALLALLLLVGLLLLLLLLLLLLLLLLLLLLL 114
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091  86 FHEVENWNEFLRVGKQIINNYAAAANSIHNRYKGAINTVINYIRENIDR----PLTLREIADQVYLSRSYLSSIFKETMG 161
Cdd:COG2207  115 LLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLllllLLTLEELARELGLSPRTLSRLFKEETG 194
                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091 162 ENIKDFIYRERMRTAQNLLLSTDVGVQEISCRCGYQSFAYFSASFRRYCHMSPTSFRQRA 221
Cdd:COG2207  195 TSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKRL 254
HTH_18 pfam12833
Helix-turn-helix domain;
141-220 1.99e-18

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 76.47  E-value: 1.99e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091  141 IADQVYLSRSYLSSIFKETMGENIKDFIYRERMRTAQNLLL-STDVGVQEISCRCGYQSFAYFSASFRRYCHMSPTSFRQ 219
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLeDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80

                  .
gi 667705091  220 R 220
Cdd:pfam12833  81 R 81
PRK10371 PRK10371
transcriptional regulator MelR;
111-219 1.37e-14

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 71.00  E-value: 1.37e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091 111 NSIHNRYKGAINTVINYIRENIDRPLTLREIADQVYLSRSYLSSIFKETMGENIKDFIYRERMRTAQNLLLSTDVGVQEI 190
Cdd:PRK10371 183 NSVSRHAQFYVSQMLGFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLSDTDKSILDI 262
                         90       100
                 ....*....|....*....|....*....
gi 667705091 191 SCRCGYQSFAYFSASFRRYCHMSPTSFRQ 219
Cdd:PRK10371 263 ALTAGFRSSSRFYSTFGKYVGMSPQQYRK 291
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
120-222 7.10e-14

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: 69.31  E-value: 7.10e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091 120 AINTVINYIRENIDRPLTLREIADQVYLSRSYLSSIFKETMGENIKDFIYRERMRTAQNLLlSTDVGVQEISCRCGYQSF 199
Cdd:COG2169   85 LVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLL-QTGLSVTDAAYAAGFGSL 163
                         90       100
                 ....*....|....*....|...
gi 667705091 200 AYFSASFRRYCHMSPTSFRQRAV 222
Cdd:COG2169  164 SRFYEAFKKLLGMTPSAYRRGGA 186
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
121-221 1.08e-13

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 68.46  E-value: 1.08e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091 121 INTVINYIRENIDRPLTLREIADQVYLSRSYLSSIFKETMGENIkdFIYRE--RMRTAQNLLLSTDVGVQEISCRCGYQS 198
Cdd:PRK10572 185 VREACQYISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISV--LRWREdqRISRAKLLLQTTRMPIATIGRNVGYDD 262
                         90       100
                 ....*....|....*....|...
gi 667705091 199 FAYFSASFRRYCHMSPTSFRQRA 221
Cdd:PRK10572 263 QLYFSRVFKKCTGASPSEFRARC 285
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
121-221 3.12e-13

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 63.79  E-value: 3.12e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091 121 INTVINYIRENIDRPLTLREIADQVYLSRSYLSSIFKETMGENIKDFIYRERMRTAQNLLLSTDVGVQEISCRCGYQSFA 200
Cdd:PRK10219   7 IQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQ 86
                         90       100
                 ....*....|....*....|.
gi 667705091 201 YFSASFRRYCHMSPTSFRQRA 221
Cdd:PRK10219  87 TFSRVFRRQFDRTPSDYRHRL 107
ftrA PRK09393
transcriptional activator FtrA; Provisional
124-220 7.57e-13

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 66.14  E-value: 7.57e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091 124 VINYIRENIDRPLTLREIADQVYLS-RSYLSSiFKETMGENIKDFIYRERMRTAQNLLLSTDVGVQEISCRCGYQSFAYF 202
Cdd:PRK09393 223 LIDWMRAHLAEPHTVASLAARAAMSpRTFLRR-FEAATGMTPAEWLLRERLARARDLLESSALSIDQIAERAGFGSEESL 301
                         90
                 ....*....|....*...
gi 667705091 203 SASFRRYCHMSPTSFRQR 220
Cdd:PRK09393 302 RHHFRRRAATSPAAYRKR 319
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
102-222 6.48e-11

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 60.69  E-value: 6.48e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091 102 IINNYAAAANSIHNRYKG-AINTVINYIRENIDRPLTLREIADQVYLSRSYLSSIFKETMGENIKDFIYRERMRTAQNLL 180
Cdd:PRK13501 158 VLKRHRYRAEQAHLLPDGeQLDLIMSALQQSLGAYFDMADFCHKNQLVERSLKQLFRQQTGMSISHYLRQIRLCHAKCLL 237
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 667705091 181 LSTDVGVQEISCRCGYQSFAYFSASFRRYCHMSPTSFRQRAV 222
Cdd:PRK13501 238 RGSEHRISDIAARCGFEDSNYFSAVFTREAGMTPRDYRQRFI 279
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
111-220 3.75e-09

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 55.32  E-value: 3.75e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091 111 NSIHNRYKGAINTVINyirENIDRPLTLREIADQVYLSRSYLSSIFKETmGENIKDFIYRERMRTAQNLLLSTDVGVQEI 190
Cdd:PRK09978 137 NVLQPNMRTRVCTVIN---NNIAHEWTLARIASELLMSPSLLKKKLREE-ETSYSQLLTECRMQRALQLIVIHGFSIKRV 212
                         90       100       110
                 ....*....|....*....|....*....|
gi 667705091 191 SCRCGYQSFAYFSASFRRYCHMSPTSFRQR 220
Cdd:PRK09978 213 AVSCGYHSVSYFIYVFRNYYGMTPTEYQER 242
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
124-221 8.67e-09

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 54.62  E-value: 8.67e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091 124 VINYIRENIDRPLTLREIADQVYLSRSYLSSIFKETmGENIKDFIYRERMRTAQNLLLSTDVGVQEISCRCGYQSFAYFS 203
Cdd:PRK15185 211 VYNIISSSPSRQWKLTDVADHIFMSTSTLKRKLAEE-GTSFSDIYLSARMNQAAKLLRIGNHNVNAVALKCGYDSTSYFI 289
                         90
                 ....*....|....*...
gi 667705091 204 ASFRRYCHMSPTSFRQRA 221
Cdd:PRK15185 290 QCFKKYFKTTPSTFIKMA 307
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
121-219 2.60e-08

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 53.13  E-value: 2.60e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091 121 INTVINYIRENIDRPLTLREIADQVYLSRSYLSSIFKETMGENIKDFIYRERMRTAQNLLLSTDVGVQEISCRCGYQSFA 200
Cdd:PRK13502 178 LDKLITALANSLECPFALDAFCQQEQCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQCGFEDSN 257
                         90
                 ....*....|....*....
gi 667705091 201 YFSASFRRYCHMSPTSFRQ 219
Cdd:PRK13502 258 YFSVVFTRETGMTPSQWRH 276
PRK15186 PRK15186
AraC family transcriptional regulator; Provisional
124-217 3.80e-08

AraC family transcriptional regulator; Provisional


Pssm-ID: 185108 [Multi-domain]  Cd Length: 291  Bit Score: 52.38  E-value: 3.80e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091 124 VINYIRENIDRPLTLREIADQVYLSRSYLSSIFKETmGENIKDFIYRERMRTAQNLLLSTDVGVQEISCRCGYQSFAYFS 203
Cdd:PRK15186 186 IYNIIISDISRKWALKDISDSLYMSCSTLKRKLKQE-NTSFSEVYLNARMNKATKLLRNSEYNITRVAYMCGYDSASYFT 264
                         90
                 ....*....|....
gi 667705091 204 ASFRRYCHMSPTSF 217
Cdd:PRK15186 265 CVFKKHFKTTPSEF 278
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
121-219 1.35e-07

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 50.87  E-value: 1.35e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091 121 INTVINYIRENIDRPLTLREIADQVYLSRSYLSSIFKETMGENIKDFIYRERMRTAQNLLLSTDVGVQEISCRCGYQSFA 200
Cdd:PRK13500 208 LDKLITRLAASLKSPFALDKFCDEASCSERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQHSRLLISDISTECGFEDSN 287
                         90
                 ....*....|....*....
gi 667705091 201 YFSASFRRYCHMSPTSFRQ 219
Cdd:PRK13500 288 YFSVVFTRETGMTPSQWRH 306
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
128-168 1.71e-07

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: 46.38  E-value: 1.71e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 667705091  128 IRENIDRPLTLREIADQVYLSRSYLSSIFKETMGENIKDFI 168
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYTGVTPSQYR 41
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
121-218 5.35e-07

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 47.40  E-value: 5.35e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091 121 INTVINYIRENIDRPLTLREIADQVYLSRSYLSSIFKETMGENIKDFIYRERMRTAQNLLLSTDVGVQEISCRCGYQSFA 200
Cdd:PRK11511  11 IHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYLAERYGFESQQ 90
                         90
                 ....*....|....*...
gi 667705091 201 YFSASFRRYCHMSPTSFR 218
Cdd:PRK11511  91 TLTRTFKNYFDVPPHKYR 108
PRK09940 PRK09940
transcriptional regulator YdeO; Provisional
124-214 2.35e-05

transcriptional regulator YdeO; Provisional


Pssm-ID: 182157 [Multi-domain]  Cd Length: 253  Bit Score: 43.92  E-value: 2.35e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091 124 VINYIRENIDRPLTLREIADQVYLSRSYLSSIFKETMgENIKDFIYRERMRTAQNLLlSTDVGVQEISCRCGYQSFAYFS 203
Cdd:PRK09940 139 VRNIVNMKLAHPWKLKDICDCLYISESLLKKKLKQEQ-TTFSQILLDARMQHAKNLI-RVEGSVNKIAEQCGYASTSYFI 216
                         90
                 ....*....|.
gi 667705091 204 ASFRRYCHMSP 214
Cdd:PRK09940 217 YAFRKHFGNSP 227
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
121-219 3.24e-05

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 43.90  E-value: 3.24e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091 121 INTVINYIRENIDRPLTLREIADQVYLSRSYLSSIFKETMGENIKDFIYRERMRTAQNLLLSTDVGVQEISCRCGYQSFA 200
Cdd:PRK13503 173 LNQLLAWLEDHFAEEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDSN 252
                         90
                 ....*....|....*....
gi 667705091 201 YFSASFRRYCHMSPTSFRQ 219
Cdd:PRK13503 253 HFSTLFRREFSWSPRDIRQ 271
PRK15044 PRK15044
transcriptional regulator SirC; Provisional
124-217 4.10e-04

transcriptional regulator SirC; Provisional


Pssm-ID: 185004 [Multi-domain]  Cd Length: 295  Bit Score: 40.40  E-value: 4.10e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091 124 VINYIRENIDRPLTLREIADQVYLSrsyLSSIFKETMGENIK-DFIYRE-RMRTAQNLLLSTDVGVQEISCRCGYQSFAY 201
Cdd:PRK15044 197 VYNIIISDLTRKWSQAEVAGKLFMS---VSSLKRKLAAEEVSfSKIYLDaRMNQAIKLLRMGAGNISQVATMCGYDTPSY 273
                         90
                 ....*....|....*.
gi 667705091 202 FSASFRRYCHMSPTSF 217
Cdd:PRK15044 274 FIAIFKRHFKITPLSF 289
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
124-221 5.98e-03

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 36.93  E-value: 5.98e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091 124 VINYIRENIDRP-LTLREIADQVYLSRSYLSSIFKETmGENIKDFIYRER-MRTAQNLL-LSTDVGVQEISCRCGYQSFA 200
Cdd:PRK09685 202 VVALIDQSIQEEiLRPEWIAGELGISVRSLYRLFAEQ-GLVVAQYIRNRRlDRCADDLRpAADDEKITSIAYKWGFSDSS 280
                         90       100
                 ....*....|....*....|.
gi 667705091 201 YFSASFRRYCHMSPTSFRQRA 221
Cdd:PRK09685 281 HFSTAFKQRFGVSPGEYRRKF 301
PRK10130 PRK10130
HTH-type transcriptional regulator EutR;
107-216 6.56e-03

HTH-type transcriptional regulator EutR;


Pssm-ID: 182258 [Multi-domain]  Cd Length: 350  Bit Score: 36.82  E-value: 6.56e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 667705091 107 AAAANSI-HNRYKGAINTVINYIRENIDRPLTLREIADQVYLSRSYLSSIFKETMGENIKDFIYRERMRTAQNLLL---S 182
Cdd:PRK10130 227 MVTAESIsHQSYRRLLSRAREYVLENMSEPVTVLDLCNQLHVSRRTLQNAFHAILGIGPNAWLKRIRLNAVRRELIspwS 306
                         90       100       110
                 ....*....|....*....|....*....|....
gi 667705091 183 TDVGVQEISCRCGYQSFAYFSASFRRYCHMSPTS 216
Cdd:PRK10130 307 QSTTVKDAAMQWGFWHLGQFATDYQQLFAEKPSL 340
 
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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