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Conserved domains on  [gi|2188460067|ref|WP_236944501|]
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AraC family transcriptional regulator [Komagataeibacter nataicola]

Protein Classification

AraC family transcriptional regulator( domain architecture ID 13722860)

AraC family transcriptional regulator contains a helix-turn-helix DNA-binding motif and controls the expression of genes with diverse biological functions including metabolism, stress response, and virulence

Gene Ontology:  GO:0003700|GO:0006355|GO:0043565

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
AraC_N pfam06719
AraC-type transcriptional regulator N-terminus; This family represents the N-terminus of ...
 63-212 4.44e-57

AraC-type transcriptional regulator N-terminus; This family represents the N-terminus of bacterial ARAC-type transcriptional regulators. In E. coli, these regulate the L-arabinose operon through sensing the presence of arabinose, and when the sugar is present, transmitting this information from the arabinose-binding domains to the protein's DNA-binding domains. This family might represent the N-terminal arm of the protein, which binds to the C-terminal DNA binding domains to hold them in a state where the protein prefers to loop and remain non-activating. All family members contain the pfam00165 domain.


:

Pssm-ID: 461994  Cd Length: 152  Bit Score: 181.93  E-value: 4.44e-57
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2188460067  63 DGLNIIRLSEKTPPSGMVYKPSLCITLQGAKAVEFGDAIFEYGAMAFLLVSIEIPALGRVTEASPECPYIGITLDLDAGI 142
Cdd:pfam06719   3 PGLTLFRTSEPTEPTPVVYEPSLCIVAQGAKRVHLGDETYEYDPGEYLVVSVDLPVTGEVTEASPEEPYLGLALDLDPAL 82

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2188460067 143 LREVMSElAQPPVPSNDQGIGVFVADLSEDLADCIRRLIRLLDNPAALPILWPAIMREICFWLLTGPHAG 212
Cdd:pfam06719  83 LAELLLE-APPPGPPPRAGRGLAVSPLDEELLDAVLRLLRLLDTPEDIPVLAPLILREILYRLLTGPQGA 151
GlxA super family cl34854
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 226-320 3.83e-24

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: 100.23  E-value: 3.83e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2188460067 226 RVAEAIHLLRANFTKPVRIEHLAAAAGMSLSSFHQHFKTLTSMTPLQYQKQLRLLEARRLMVSEDVNVSHAAFEVGYESP 305
Cdd:COG4977   211 RLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSA 290

                          90
                  ....*....|....*
gi 2188460067 306 SQFSRDYVRRFGTAP 320
Cdd:COG4977   291 SHFRRAFRRRFGVSP 305
 
Name Accession Description Interval E-value
AraC_N pfam06719
AraC-type transcriptional regulator N-terminus; This family represents the N-terminus of ...
 63-212 4.44e-57

AraC-type transcriptional regulator N-terminus; This family represents the N-terminus of bacterial ARAC-type transcriptional regulators. In E. coli, these regulate the L-arabinose operon through sensing the presence of arabinose, and when the sugar is present, transmitting this information from the arabinose-binding domains to the protein's DNA-binding domains. This family might represent the N-terminal arm of the protein, which binds to the C-terminal DNA binding domains to hold them in a state where the protein prefers to loop and remain non-activating. All family members contain the pfam00165 domain.


Pssm-ID: 461994  Cd Length: 152  Bit Score: 181.93  E-value: 4.44e-57
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2188460067  63 DGLNIIRLSEKTPPSGMVYKPSLCITLQGAKAVEFGDAIFEYGAMAFLLVSIEIPALGRVTEASPECPYIGITLDLDAGI 142
Cdd:pfam06719   3 PGLTLFRTSEPTEPTPVVYEPSLCIVAQGAKRVHLGDETYEYDPGEYLVVSVDLPVTGEVTEASPEEPYLGLALDLDPAL 82

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2188460067 143 LREVMSElAQPPVPSNDQGIGVFVADLSEDLADCIRRLIRLLDNPAALPILWPAIMREICFWLLTGPHAG 212
Cdd:pfam06719  83 LAELLLE-APPPGPPPRAGRGLAVSPLDEELLDAVLRLLRLLDTPEDIPVLAPLILREILYRLLTGPQGA 151
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 226-320 3.83e-24

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: 100.23  E-value: 3.83e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2188460067 226 RVAEAIHLLRANFTKPVRIEHLAAAAGMSLSSFHQHFKTLTSMTPLQYQKQLRLLEARRLMVSEDVNVSHAAFEVGYESP 305
Cdd:COG4977   211 RLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSA 290

                          90
                  ....*....|....*
gi 2188460067 306 SQFSRDYVRRFGTAP 320
Cdd:COG4977   291 SHFRRAFRRRFGVSP 305
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
75-322 6.49e-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: 6.49e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2188460067  75 PPSGMVYKPSLCITLQGAKAVEFGDAIFEYGAMAFLLVSIEIPALGRVTEASPECPYIGITLDLDAGILREVMSELAQPP 154
Cdd:COG2207     2 RLLILLLLLLLLLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLL 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2188460067 155 VPSNDQGIGVFVADLSEDLADCIRRLIRLLDNPAALPILWPAIMREICFWLLTGPHAGEVCKLVLPDSHMQRVAEAIHLL 234
Cdd:COG2207    82 LLALLALLLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLL 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2188460067 235 RANFTKPVRIEHLAAAAGMSLSSFHQHFKTLTSMTPLQYQKQLRLLEARRLMVSEDVNVSHAAFEVGYESPSQFSRDYVR 314
Cdd:COG2207   162 LLLLLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKK 241


                  ....*...
gi 2188460067 315 RFGTAPKR 322
Cdd:COG2207   242 RFGVTPSE 249
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
241-321 3.09e-23

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 91.46  E-value: 3.09e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2188460067  241 PVRIEHLAAAAGMSLSSFHQHFKTLTSMTPLQYQKQLRLLEARRLMVSEDVNVSHAAFEVGYESPSQFSRDYVRRFGTAP 320
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   .
gi 2188460067  321 K 321
Cdd:smart00342  81 S 81
HTH_18 pfam12833
Helix-turn-helix domain;
247-322 1.87e-22

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 89.19  E-value: 1.87e-22
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2188460067 247 LAAAAGMSLSSFHQHFKTLTSMTPLQYQKQLRLLEARRLMVSE-DVNVSHAAFEVGYESPSQFSRDYVRRFGTAPKR 322
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEDtGLSVAEIALALGFSDASHFSRAFRRLFGLTPSE 77
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
234-329 2.19e-12

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 66.24  E-value: 2.19e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2188460067 234 LRANFTKPVRIEHLAAAAGMSLSSFHQHFKTLTSMTPLQYQKQLRLLEARRLMVSEDVNVSHAAFEVGYESPSQFSRDYV 313
Cdd:PRK13503  180 LEDHFAEEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDSNHFSTLFR 259

                          90
                  ....*....|....*.
gi 2188460067 314 RRFGTAPKrdvmELRS 329
Cdd:PRK13503  260 REFSWSPR----DIRQ 271
 
Name Accession Description Interval E-value
AraC_N pfam06719
AraC-type transcriptional regulator N-terminus; This family represents the N-terminus of ...
 63-212 4.44e-57

AraC-type transcriptional regulator N-terminus; This family represents the N-terminus of bacterial ARAC-type transcriptional regulators. In E. coli, these regulate the L-arabinose operon through sensing the presence of arabinose, and when the sugar is present, transmitting this information from the arabinose-binding domains to the protein's DNA-binding domains. This family might represent the N-terminal arm of the protein, which binds to the C-terminal DNA binding domains to hold them in a state where the protein prefers to loop and remain non-activating. All family members contain the pfam00165 domain.


Pssm-ID: 461994  Cd Length: 152  Bit Score: 181.93  E-value: 4.44e-57
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2188460067  63 DGLNIIRLSEKTPPSGMVYKPSLCITLQGAKAVEFGDAIFEYGAMAFLLVSIEIPALGRVTEASPECPYIGITLDLDAGI 142
Cdd:pfam06719   3 PGLTLFRTSEPTEPTPVVYEPSLCIVAQGAKRVHLGDETYEYDPGEYLVVSVDLPVTGEVTEASPEEPYLGLALDLDPAL 82

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2188460067 143 LREVMSElAQPPVPSNDQGIGVFVADLSEDLADCIRRLIRLLDNPAALPILWPAIMREICFWLLTGPHAG 212
Cdd:pfam06719  83 LAELLLE-APPPGPPPRAGRGLAVSPLDEELLDAVLRLLRLLDTPEDIPVLAPLILREILYRLLTGPQGA 151
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 226-320 3.83e-24

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: 100.23  E-value: 3.83e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2188460067 226 RVAEAIHLLRANFTKPVRIEHLAAAAGMSLSSFHQHFKTLTSMTPLQYQKQLRLLEARRLMVSEDVNVSHAAFEVGYESP 305
Cdd:COG4977   211 RLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSA 290

                          90
                  ....*....|....*
gi 2188460067 306 SQFSRDYVRRFGTAP 320
Cdd:COG4977   291 SHFRRAFRRRFGVSP 305
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
75-322 6.49e-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: 6.49e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2188460067  75 PPSGMVYKPSLCITLQGAKAVEFGDAIFEYGAMAFLLVSIEIPALGRVTEASPECPYIGITLDLDAGILREVMSELAQPP 154
Cdd:COG2207     2 RLLILLLLLLLLLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLL 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2188460067 155 VPSNDQGIGVFVADLSEDLADCIRRLIRLLDNPAALPILWPAIMREICFWLLTGPHAGEVCKLVLPDSHMQRVAEAIHLL 234
Cdd:COG2207    82 LLALLALLLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLL 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2188460067 235 RANFTKPVRIEHLAAAAGMSLSSFHQHFKTLTSMTPLQYQKQLRLLEARRLMVSEDVNVSHAAFEVGYESPSQFSRDYVR 314
Cdd:COG2207   162 LLLLLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKK 241


                  ....*...
gi 2188460067 315 RFGTAPKR 322
Cdd:COG2207   242 RFGVTPSE 249
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
241-321 3.09e-23

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 91.46  E-value: 3.09e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2188460067  241 PVRIEHLAAAAGMSLSSFHQHFKTLTSMTPLQYQKQLRLLEARRLMVSEDVNVSHAAFEVGYESPSQFSRDYVRRFGTAP 320
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   .
gi 2188460067  321 K 321
Cdd:smart00342  81 S 81
HTH_18 pfam12833
Helix-turn-helix domain;
247-322 1.87e-22

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 89.19  E-value: 1.87e-22
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2188460067 247 LAAAAGMSLSSFHQHFKTLTSMTPLQYQKQLRLLEARRLMVSE-DVNVSHAAFEVGYESPSQFSRDYVRRFGTAPKR 322
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEDtGLSVAEIALALGFSDASHFSRAFRRLFGLTPSE 77
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 215-322 1.15e-19

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: 88.19  E-value: 1.15e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2188460067 215 CKLVLPDS------HMQRVAEAIHLLRANFTKPVRIEHLAAAAGMSLSSFHQHFKTLTSMTPLQYQKQLRLLEARRLMvS 288
Cdd:COG2169    68 CKRCRPDLapgsppRADLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLL-Q 146

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2188460067 289 EDVNVSHAAFEVGYESPSQFSRDYVRRFGTAPKR 322
Cdd:COG2169   147 TGLSVTDAAYAAGFGSLSRFYEAFKKLLGMTPSA 180
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
234-329 2.19e-12

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 66.24  E-value: 2.19e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2188460067 234 LRANFTKPVRIEHLAAAAGMSLSSFHQHFKTLTSMTPLQYQKQLRLLEARRLMVSEDVNVSHAAFEVGYESPSQFSRDYV 313
Cdd:PRK13503  180 LEDHFAEEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDSNHFSTLFR 259

                          90
                  ....*....|....*.
gi 2188460067 314 RRFGTAPKrdvmELRS 329
Cdd:PRK13503  260 REFSWSPR----DIRQ 271
ftrA PRK09393
transcriptional activator FtrA; Provisional
 225-320 4.74e-10

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 59.98  E-value: 4.74e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2188460067 225 QRVAEAIHLLRANFTKPVRIEHLAAAAGMSLSSFHQHFKTLTSMTPLQYQKQLRLLEARRLMVSEDVNVSHAAFEVGYES 304
Cdd:PRK09393  218 DRLGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLESSALSIDQIAERAGFGS 297

                          90
                  ....*....|....*.
gi 2188460067 305 PSQFSRDYVRRFGTAP 320
Cdd:PRK09393  298 EESLRHHFRRRAATSP 313
PRK15435 PRK15435
bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;
215-322 6.80e-09

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


Pssm-ID: 185333 [Multi-domain]  Cd Length: 353  Bit Score: 56.34  E-value: 6.80e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2188460067 215 CKLVLPDS------HMQRVAEAIHLLRANftKPVRIEHLAAAAGMSLSSFHQHFKTLTSMTPLQYQKQLRlleARRL--M 286
Cdd:PRK15435   69 CKRCQPDKanpqqhRLDKITHACRLLEQE--TPVTLEALADQVAMSPFHLHRLFKATTGMTPKAWQQAWR---ARRLreA 143

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 2188460067 287 VSEDVNVSHAAFEVGYESPSQFSRDYVRRFGTAPKR 322
Cdd:PRK15435  144 LAKGESVTTSILNAGFPDSSSYYRKADETLGMTAKQ 179
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
222-320 1.76e-07

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 48.77  E-value: 1.76e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2188460067 222 SHMQRVAEAIHLLRANFTKPVRIEHLAAAAGMSLSSFHQHFKTLTSMTPLQYQKQLRLLEARRLMVSEDVNVSHAAFEVG 301
Cdd:PRK10219    2 SHQKIIQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLG 81

                          90
                  ....*....|....*....
gi 2188460067 302 YESPSQFSRDYVRRFGTAP 320
Cdd:PRK10219   82 YVSQQTFSRVFRRQFDRTP 100
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
225-321 4.07e-07

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 50.74  E-value: 4.07e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2188460067 225 QRVAEAIHLLRANFTKPVRIEHLAAAAGMSLSSFHQHFKTLTSMTPLQYQKQLRLLEARRLMVSEDVNVSHAAFEVGYES 304
Cdd:PRK10572  183 PRVREACQYISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDD 262

                          90
                  ....*....|....*..
gi 2188460067 305 PSQFSRDYVRRFGTAPK 321
Cdd:PRK10572  263 QLYFSRVFKKCTGASPS 279
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 234-275 3.82e-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: 43.30  E-value: 3.82e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 2188460067 234 LRANFTKPVRIEHLAAAAGMSLSSFHQHFKTLTSMTPLQYQK 275
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYTGVTPSQYRH 42
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
222-322 8.80e-06

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 46.59  E-value: 8.80e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2188460067 222 SHMQRVAEAIHLLRANFTKPVRIEHLAAAAGMSLSSFHQHFKTLTSMTPLQYQKQLRLLEARRLMVSEDVNVSHAAFEVG 301
Cdd:PRK13502  173 SRETLLDKLITALANSLECPFALDAFCQQEQCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQCG 252

                          90       100
                  ....*....|....*....|.
gi 2188460067 302 YESPSQFSRDYVRRFGTAPKR 322
Cdd:PRK13502  253 FEDSNYFSVVFTRETGMTPSQ 273
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
220-322 1.06e-05

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 46.63  E-value: 1.06e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2188460067 220 PDSHMQRVAEAIHLLRANFTKPVRIEHLAAAAGMSLSSFHQHFKTLTSMTPLQYQKQLRLLEARRLMVSEDVNVSHAAFE 299
Cdd:PRK13500  201 PTSSETLLDKLITRLAASLKSPFALDKFCDEASCSERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQHSRLLISDISTE 280

                          90       100
                  ....*....|....*....|...
gi 2188460067 300 VGYESPSQFSRDYVRRFGTAPKR 322
Cdd:PRK13500  281 CGFEDSNYFSVVFTRETGMTPSQ 303
HTH_18 pfam12833
Helix-turn-helix domain;
223-276 2.08e-05

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 42.19  E-value: 2.08e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2188460067 223 HMQRVAEAIHLLRANFTKPVriEHLAAAAGM-SLSSFHQHFKTLTSMTPLQYQKQ 276
Cdd:pfam12833  29 RRLRLERARRLLLEDTGLSV--AEIALALGFsDASHFSRAFRRLFGLTPSEYRRR 81
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
234-321 2.43e-05

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 45.28  E-value: 2.43e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2188460067 234 LRANFTKPVRIEHLAAAAGMSLSSFHQHFKTLTSMTPLQYQKQLRLLEARRLMVSEDVNVSHAAFEVGYESPSQFSRDYV 313
Cdd:PRK13501  185 LQQSLGAYFDMADFCHKNQLVERSLKQLFRQQTGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFSAVFT 264


                  ....*...
gi 2188460067 314 RRFGTAPK 321
Cdd:PRK13501  265 REAGMTPR 272
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
223-278 4.04e-04

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 41.30  E-value: 4.04e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2188460067 223 HMQRVAEAIHLLRanfTKPVRIEHLAAAAGM-SLSSFHQHFKTLTSMTPLQYQKQLR 278
Cdd:COG2207   202 RELRLERAKRLLA---ETDLSISEIAYELGFsSQSHFSRAFKKRFGVTPSEYRKRLR 255
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 224-284 9.54e-03

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: 37.34  E-value: 9.54e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2188460067 224 MQRVAEAIHLLRANftkpVRIEHLAAAAGM-SLSSFHQHFKTLTSMTPLQYQKQLRLLEARR 284
Cdd:COG2169   135 ARRLLRARQLLQTG----LSVTDAAYAAGFgSLSRFYEAFKKLLGMTPSAYRRGGAGAAIRF 192
 
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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