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Conserved domains on  [gi|488051604|ref|WP_002123001|]
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MULTISPECIES: AraC family transcriptional regulator [Gammaproteobacteria]

Protein Classification

AraC family transcriptional regulator( domain architecture ID 12123318)

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

CATH:  2.60.120.10
Gene Ontology:  GO:0003700|GO:0006355|GO:0043565
PubMed:  11282467|33837749|9409145|12270809|19478949|14697267|9573603
SCOP:  3001825

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Cupin_6 pfam12852
Cupin; This is a family of bacterial and eukaryotic proteins that belong to the Cupin ...
 2-189 4.29e-36

Cupin; This is a family of bacterial and eukaryotic proteins that belong to the Cupin superfamily. Some of the proteins in this family are annotated as being members of the AraC family of transcription factors, in which case this domain corresponds to the ligand binding domain.


:

Pssm-ID: 432833  Cd Length: 184  Bit Score: 128.19  E-value: 4.29e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604    2 DVLSEILDKVELTSSYWYRTSFAGDWGISLPQEEnLARFHIVTHGEFWYEVPKLKLKALAEqGDILIFFKGMEHTMASAP 81
Cdd:pfam12852   1 DVLSDLLAGLRLRGAVFFRGVLRAPWALRFPAGD-GATFHVVLRGSCWLRLPGGEPVRLRA-GDLVLLPRGDPHVLADDP 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604   82 KIKAEPAVEFRAKANLTEAQVLEYGDQskLKANVVCGHFCFNGGPDHPFLNSLPNVVHIKsADNSHSPWLAMLLSIIEQE 161
Cdd:pfam12852  79 GTPPVPVDPLSRAPRPGEGEPVVGGGG--AATVLLCGAFQFDGEAANPLLAALPPVLHVP-ADEAAAPWLRALLELLAAE 155

                         170       180
                  ....*....|....*....|....*...
gi 488051604  162 AKSGLPGSNTLVRKLTEIIFVQALRIHM 189
Cdd:pfam12852 156 LAEDRPGSQAVLDRLLDLLLVQALRAWL 183
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
221-304 2.24e-27

helix_turn_helix, arabinose operon control protein;


:

Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 101.86  E-value: 2.24e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604   221 KWGLDDLAGIAGMSRTNYSVKFKELSGMTPLDYLTYCRLEKAKQLLKESGKSVPEVSEAIGYPAHEHFQKLFKKKIGKTP 300
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 488051604   301 SAYR 304
Cdd:smart00342  81 SEYR 84
 
Name Accession Description Interval E-value
Cupin_6 pfam12852
Cupin; This is a family of bacterial and eukaryotic proteins that belong to the Cupin ...
 2-189 4.29e-36

Cupin; This is a family of bacterial and eukaryotic proteins that belong to the Cupin superfamily. Some of the proteins in this family are annotated as being members of the AraC family of transcription factors, in which case this domain corresponds to the ligand binding domain.


Pssm-ID: 432833  Cd Length: 184  Bit Score: 128.19  E-value: 4.29e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604    2 DVLSEILDKVELTSSYWYRTSFAGDWGISLPQEEnLARFHIVTHGEFWYEVPKLKLKALAEqGDILIFFKGMEHTMASAP 81
Cdd:pfam12852   1 DVLSDLLAGLRLRGAVFFRGVLRAPWALRFPAGD-GATFHVVLRGSCWLRLPGGEPVRLRA-GDLVLLPRGDPHVLADDP 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604   82 KIKAEPAVEFRAKANLTEAQVLEYGDQskLKANVVCGHFCFNGGPDHPFLNSLPNVVHIKsADNSHSPWLAMLLSIIEQE 161
Cdd:pfam12852  79 GTPPVPVDPLSRAPRPGEGEPVVGGGG--AATVLLCGAFQFDGEAANPLLAALPPVLHVP-ADEAAAPWLRALLELLAAE 155

                         170       180
                  ....*....|....*....|....*...
gi 488051604  162 AKSGLPGSNTLVRKLTEIIFVQALRIHM 189
Cdd:pfam12852 156 LAEDRPGSQAVLDRLLDLLLVQALRAWL 183
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
221-304 2.24e-27

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 101.86  E-value: 2.24e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604   221 KWGLDDLAGIAGMSRTNYSVKFKELSGMTPLDYLTYCRLEKAKQLLKESGKSVPEVSEAIGYPAHEHFQKLFKKKIGKTP 300
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 488051604   301 SAYR 304
Cdd:smart00342  81 SEYR 84
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
224-310 1.62e-24

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 99.85  E-value: 1.62e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604 224 LDDLAGIAGMSRTNYSVKFKELSGMTPLDYLTYCRLEKAKQLLKESGKSVPEVSEAIGYPAHEHFQKLFKKKIGKTPSAY 303
Cdd:COG2207  171 LEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEY 250


                 ....*..
gi 488051604 304 RKENSEK 310
Cdd:COG2207  251 RKRLRAR 257
HTH_18 pfam12833
Helix-turn-helix domain;
227-305 1.46e-21

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 86.49  E-value: 1.46e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604  227 LAGIAGMSRTNYSVKFKELSGMTPLDYLTYCRLEKAKQLL-KESGKSVPEVSEAIGYPAHEHFQKLFKKKIGKTPSAYRK 305
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLlEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
ftrA PRK09393
transcriptional activator FtrA; Provisional
 207-305 5.09e-16

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 76.93  E-value: 5.09e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604 207 LSKTLEAIHHSLDKKWGLDDLAGIAGMSRTNYSVKFKELSGMTPLDYLTYCRLEKAKQLLKESGKSVPEVSEAIGYPAHE 286
Cdd:PRK09393 220 LGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLESSALSIDQIAERAGFGSEE 299

                         90
                 ....*....|....*....
gi 488051604 287 HFQKLFKKKIGKTPSAYRK 305
Cdd:PRK09393 300 SLRHHFRRRAATSPAAYRK 318
cupin_YkgD-like_N cd06995
AraC/XylS family transcriptional regulators similar to Escherichia coli YkgD, N-terminal cupin ...
 20-119 3.61e-09

AraC/XylS family transcriptional regulators similar to Escherichia coli YkgD, N-terminal cupin domain; This family contains mostly bacterial proteins containing an AraC/XylS family helix-turn-helix (HTH) DNA-binding domain C-terminal to a cupin domain, and may be possible transcriptional regulators. Included in this family is YkgD, an uncharacterized Escherichia coli protein thought to be a transcriptional regulator. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380399  Cd Length: 114  Bit Score: 53.88  E-value: 3.61e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604  20 RTSFAGDWGISLPQEEN-LARFHIVTHGEFWYEVPKLKLKALAEqGDILIFFKGMEHTMASAPKIKAEPAVEFRAKANLT 98
Cdd:cd06995   19 RCQLQGDWQLDHPAGPLgEARFHIVLQGECRLELPGGESLTLSP-GDVVLLPQGSAHRLHSGSNKDAAVPPTLSSDGLLP 97

                         90       100
                 ....*....|....*....|.
gi 488051604  99 EAQvleyGDQSKLKANVVCGH 119
Cdd:cd06995   98 LRR----NGGGGEDLDMLCGR 114
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
140-311 7.39e-07

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 49.59  E-value: 7.39e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604 140 IKSADNSHSPWLAMLLSIIEQEAKSGLPGSNTLVRKLTEIIFVQALRIHMYKSNKnagffklIENPQLSKTLEAIHHSLD 219
Cdd:PRK10572 125 LRIPDEALQPEFSDLFGQIEQAGQSEGRYSELLAMNLLERLLLRCMEAIPESLHP-------PMDPRVREACQYISDHLA 197

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604 220 KKWGLDDLAGIAGMSRTNYSVKFKELSGMTPLDYLTYCRLEKAKQLLKESGKSVPEVSEAIGYPAHEHFQKLFKKKIGKT 299
Cdd:PRK10572 198 SEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQLYFSRVFKKCTGAS 277

                        170
                 ....*....|..
gi 488051604 300 PSAYRKENSEKV 311
Cdd:PRK10572 278 PSEFRARCEEKN 289
 
Name Accession Description Interval E-value
Cupin_6 pfam12852
Cupin; This is a family of bacterial and eukaryotic proteins that belong to the Cupin ...
 2-189 4.29e-36

Cupin; This is a family of bacterial and eukaryotic proteins that belong to the Cupin superfamily. Some of the proteins in this family are annotated as being members of the AraC family of transcription factors, in which case this domain corresponds to the ligand binding domain.


Pssm-ID: 432833  Cd Length: 184  Bit Score: 128.19  E-value: 4.29e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604    2 DVLSEILDKVELTSSYWYRTSFAGDWGISLPQEEnLARFHIVTHGEFWYEVPKLKLKALAEqGDILIFFKGMEHTMASAP 81
Cdd:pfam12852   1 DVLSDLLAGLRLRGAVFFRGVLRAPWALRFPAGD-GATFHVVLRGSCWLRLPGGEPVRLRA-GDLVLLPRGDPHVLADDP 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604   82 KIKAEPAVEFRAKANLTEAQVLEYGDQskLKANVVCGHFCFNGGPDHPFLNSLPNVVHIKsADNSHSPWLAMLLSIIEQE 161
Cdd:pfam12852  79 GTPPVPVDPLSRAPRPGEGEPVVGGGG--AATVLLCGAFQFDGEAANPLLAALPPVLHVP-ADEAAAPWLRALLELLAAE 155

                         170       180
                  ....*....|....*....|....*...
gi 488051604  162 AKSGLPGSNTLVRKLTEIIFVQALRIHM 189
Cdd:pfam12852 156 LAEDRPGSQAVLDRLLDLLLVQALRAWL 183
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
221-304 2.24e-27

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 101.86  E-value: 2.24e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604   221 KWGLDDLAGIAGMSRTNYSVKFKELSGMTPLDYLTYCRLEKAKQLLKESGKSVPEVSEAIGYPAHEHFQKLFKKKIGKTP 300
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 488051604   301 SAYR 304
Cdd:smart00342  81 SEYR 84
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
224-310 1.62e-24

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 99.85  E-value: 1.62e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604 224 LDDLAGIAGMSRTNYSVKFKELSGMTPLDYLTYCRLEKAKQLLKESGKSVPEVSEAIGYPAHEHFQKLFKKKIGKTPSAY 303
Cdd:COG2207  171 LEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEY 250


                 ....*..
gi 488051604 304 RKENSEK 310
Cdd:COG2207  251 RKRLRAR 257
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 203-305 1.63e-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: 97.92  E-value: 1.63e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604 203 ENPQLSKTLEAIHHSLDKKWGLDDLAGIAGMSRTNYSVKFKELSGMTPLDYLTYCRLEKAKQLLKESGKSVPEVSEAIGY 282
Cdd:COG4977  208 RDPRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGF 287

                         90       100
                 ....*....|....*....|...
gi 488051604 283 PAHEHFQKLFKKKIGKTPSAYRK 305
Cdd:COG4977  288 GSASHFRRAFRRRFGVSPSAYRR 310
HTH_18 pfam12833
Helix-turn-helix domain;
227-305 1.46e-21

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 86.49  E-value: 1.46e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604  227 LAGIAGMSRTNYSVKFKELSGMTPLDYLTYCRLEKAKQLL-KESGKSVPEVSEAIGYPAHEHFQKLFKKKIGKTPSAYRK 305
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLlEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 211-305 3.35e-17

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: 80.87  E-value: 3.35e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604 211 LEAIHHSLDKKWGLDDLAGIAGMS-----RTnysvkFKELSGMTPLDYLTYCRLEKAKQLLkESGKSVPEVSEAIGYPAH 285
Cdd:COG2169   90 CRLIEAGAEDRPSLEDLAARLGLSprhlrRL-----FKAHTGVTPKAYARARRLLRARQLL-QTGLSVTDAAYAAGFGSL 163

                         90       100
                 ....*....|....*....|
gi 488051604 286 EHFQKLFKKKIGKTPSAYRK 305
Cdd:COG2169  164 SRFYEAFKKLLGMTPSAYRR 183
ftrA PRK09393
transcriptional activator FtrA; Provisional
 207-305 5.09e-16

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 76.93  E-value: 5.09e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604 207 LSKTLEAIHHSLDKKWGLDDLAGIAGMSRTNYSVKFKELSGMTPLDYLTYCRLEKAKQLLKESGKSVPEVSEAIGYPAHE 286
Cdd:PRK09393 220 LGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLESSALSIDQIAERAGFGSEE 299

                         90
                 ....*....|....*....
gi 488051604 287 HFQKLFKKKIGKTPSAYRK 305
Cdd:PRK09393 300 SLRHHFRRRAATSPAAYRK 318
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
144-306 1.11e-12

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 67.24  E-value: 1.11e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604 144 DNSHSPW------LAMLLSIIEQEAKSGLPgSNTLVRKLTEIIFVQ---ALRIHMYKSNKNagfFKLIENPQLSKTLEAI 214
Cdd:PRK13501 110 EQNQGYWrlttqgMAQARPIIQQLAQESRK-TDSWSIQLTEVLLLQlaiVLKRHRYRAEQA---HLLPDGEQLDLIMSAL 185

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604 215 HHSLDKKWGLDDLAGIAGMSRTNYSVKFKELSGMTPLDYLTYCRLEKAKQLLKESGKSVPEVSEAIGYPAHEHFQKLFKK 294
Cdd:PRK13501 186 QQSLGAYFDMADFCHKNQLVERSLKQLFRQQTGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFSAVFTR 265

                        170
                 ....*....|..
gi 488051604 295 KIGKTPSAYRKE 306
Cdd:PRK13501 266 EAGMTPRDYRQR 277
cupin_YkgD-like_N cd06995
AraC/XylS family transcriptional regulators similar to Escherichia coli YkgD, N-terminal cupin ...
 20-119 3.61e-09

AraC/XylS family transcriptional regulators similar to Escherichia coli YkgD, N-terminal cupin domain; This family contains mostly bacterial proteins containing an AraC/XylS family helix-turn-helix (HTH) DNA-binding domain C-terminal to a cupin domain, and may be possible transcriptional regulators. Included in this family is YkgD, an uncharacterized Escherichia coli protein thought to be a transcriptional regulator. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380399  Cd Length: 114  Bit Score: 53.88  E-value: 3.61e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604  20 RTSFAGDWGISLPQEEN-LARFHIVTHGEFWYEVPKLKLKALAEqGDILIFFKGMEHTMASAPKIKAEPAVEFRAKANLT 98
Cdd:cd06995   19 RCQLQGDWQLDHPAGPLgEARFHIVLQGECRLELPGGESLTLSP-GDVVLLPQGSAHRLHSGSNKDAAVPPTLSSDGLLP 97

                         90       100
                 ....*....|....*....|.
gi 488051604  99 EAQvleyGDQSKLKANVVCGH 119
Cdd:cd06995   98 LRR----NGGGGEDLDMLCGR 114
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
158-310 9.33e-09

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 55.49  E-value: 9.33e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604 158 IEQEAKSGLPGSNtlvrKLTEIIF---VQALRIHMYKSNKnagFFKLIENPQLSKTLEAIHHSLDKKWGLDDLAGIAGMS 234
Cdd:PRK13500 163 LEHESSQHVPFAN----EMAELLFgqlVMLLNRHRYTSDS---LPPTSSETLLDKLITRLAASLKSPFALDKFCDEASCS 235

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 488051604 235 RTNYSVKFKELSGMTPLDYLTYCRLEKAKQLLKESGKSVPEVSEAIGYPAHEHFQKLFKKKIGKTPSAYRKENSEK 310
Cdd:PRK13500 236 ERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQHSRLLISDISTECGFEDSNYFSVVFTRETGMTPSQWRHLNSQK 311
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
212-304 2.88e-08

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 51.08  E-value: 2.88e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604 212 EAIHHSLDKKWGLDDLAGIAGMSRTNYSVKFKELSGMTPLDYLTYCRLEKAKQLLKESGKSVPEVSEAIGYPAHEHFQKL 291
Cdd:PRK10219  12 AWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQTFSRV 91

                         90
                 ....*....|...
gi 488051604 292 FKKKIGKTPSAYR 304
Cdd:PRK10219  92 FRRQFDRTPSDYR 104
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
154-311 1.54e-07

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 51.59  E-value: 1.54e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604 154 LLSIIEQEAKsglpGSNTLVRKLTEIIF---VQALRIHMYKSNKnagFFKLIENPQLSKTLEAIHHSLDKKWGLDDLAGI 230
Cdd:PRK13502 129 VINQLEHESN----GRDPLANEMAELLFgqlVMTLKRHRYATDD---LPATSRETLLDKLITALANSLECPFALDAFCQQ 201

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604 231 AGMSRTNYSVKFKELSGMTPLDYLTYCRLEKAKQLLKESGKSVPEVSEAIGYPAHEHFQKLFKKKIGKTPSAYRKENSEK 310
Cdd:PRK13502 202 EQCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQCGFEDSNYFSVVFTRETGMTPSQWRHLSNQS 281


                 .
gi 488051604 311 V 311
Cdd:PRK13502 282 D 282
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
243-304 4.43e-07

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 50.45  E-value: 4.43e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 488051604 243 KELSGMTPLDYLTYCRLEKAKQLLKESGKSVPEVSEAIGYPAHEHFQKLFKKKIGKTPSAYR 304
Cdd:PRK13503 209 KQQTGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDSNHFSTLFRREFSWSPRDIR 270
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
140-311 7.39e-07

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 49.59  E-value: 7.39e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604 140 IKSADNSHSPWLAMLLSIIEQEAKSGLPGSNTLVRKLTEIIFVQALRIHMYKSNKnagffklIENPQLSKTLEAIHHSLD 219
Cdd:PRK10572 125 LRIPDEALQPEFSDLFGQIEQAGQSEGRYSELLAMNLLERLLLRCMEAIPESLHP-------PMDPRVREACQYISDHLA 197

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604 220 KKWGLDDLAGIAGMSRTNYSVKFKELSGMTPLDYLTYCRLEKAKQLLKESGKSVPEVSEAIGYPAHEHFQKLFKKKIGKT 299
Cdd:PRK10572 198 SEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQLYFSRVFKKCTGAS 277

                        170
                 ....*....|..
gi 488051604 300 PSAYRKENSEKV 311
Cdd:PRK10572 278 PSEFRARCEEKN 289
PRK10371 PRK10371
transcriptional regulator MelR;
186-310 1.97e-06

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 48.66  E-value: 1.97e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604 186 RIHMYKSNKNAGFFklienpqLSKTLEAIHHSLDKKWGLDDLAGIAGMSrTNYSVK-FKELSGMTPLDYLTYCRLEKAKQ 264
Cdd:PRK10371 179 RTHKNSVSRHAQFY-------VSQMLGFIAENYDQALTINDVAEHVKLN-ANYAMGiFQRVMQLTMKQYITAMRINHVRA 250

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 488051604 265 LLKESGKSVPEVSEAIGYPAHEHFQKLFKKKIGKTPSAYRKENSEK 310
Cdd:PRK10371 251 LLSDTDKSILDIALTAGFRSSSRFYSTFGKYVGMSPQQYRKLSQQR 296
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
 214-305 3.77e-06

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 47.68  E-value: 3.77e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604 214 IHHSLDKKWGLDDLAGIAGMSRTNYSVKFKElSGMTPLDYLTYCRLEKAKQLLKESGKSVPEVSEAIGYPAHEHFQKLFK 293
Cdd:PRK15185 215 ISSSPSRQWKLTDVADHIFMSTSTLKRKLAE-EGTSFSDIYLSARMNQAAKLLRIGNHNVNAVALKCGYDSTSYFIQCFK 293

                         90
                 ....*....|..
gi 488051604 294 KKIGKTPSAYRK 305
Cdd:PRK15185 294 KYFKTTPSTFIK 305
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 214-255 5.14e-06

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


Pssm-ID: 425497 [Multi-domain]  Cd Length: 42  Bit Score: 42.53  E-value: 5.14e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 488051604  214 IHHSLDKKWGLDDLAGIAGMSRTNYSVKFKELSGMTPLDYLT 255
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYTGVTPSQYRH 42
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 214-309 3.56e-05

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 44.53  E-value: 3.56e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604 214 IHHSLDKKWGLDDLAGIAGMSRTNYSVKFKElSGMTPLDYLTYCRLEKAKQLLKESGKSVPEVSEAIGYPAHEHFQKLFK 293
Cdd:PRK09978 151 INNNIAHEWTLARIASELLMSPSLLKKKLRE-EETSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYVFR 229

                         90
                 ....*....|....*.
gi 488051604 294 KKIGKTPSAYRKENSE 309
Cdd:PRK09978 230 NYYGMTPTEYQERSAQ 245
PRK15186 PRK15186
AraC family transcriptional regulator; Provisional
 189-303 4.60e-05

AraC family transcriptional regulator; Provisional


Pssm-ID: 185108 [Multi-domain]  Cd Length: 291  Bit Score: 44.29  E-value: 4.60e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604 189 MYKSNKNAGFFKLIENPQLSKTLEAIHHSLDKKWGLDDLAGIAGMSRTNYSVKFKELSGMTPLDYLTyCRLEKAKQLLKE 268
Cdd:PRK15186 165 IYEPEAFALFRELSQNTLAENIYNIIISDISRKWALKDISDSLYMSCSTLKRKLKQENTSFSEVYLN-ARMNKATKLLRN 243

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 488051604 269 SGKSVPEVSEAIGYPAHEHFQKLFKKKIGKTPSAY 303
Cdd:PRK15186 244 SEYNITRVAYMCGYDSASYFTCVFKKHFKTTPSEF 278
PRK09940 PRK09940
transcriptional regulator YdeO; Provisional
 197-306 3.51e-04

transcriptional regulator YdeO; Provisional


Pssm-ID: 182157 [Multi-domain]  Cd Length: 253  Bit Score: 41.22  E-value: 3.51e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604 197 GFFKLIENPQLS---KTLEAIHHSLDKKWGLDDLAGIAGMSRTNYSVKFKElSGMTPLDYLTYCRLEKAKQLLKESGkSV 273
Cdd:PRK09940 123 GFITLLTNGVLSvsgKVRNIVNMKLAHPWKLKDICDCLYISESLLKKKLKQ-EQTTFSQILLDARMQHAKNLIRVEG-SV 200

                         90       100       110
                 ....*....|....*....|....*....|...
gi 488051604 274 PEVSEAIGYPAHEHFQKLFKKKIGKTPSAYRKE 306
Cdd:PRK09940 201 NKIAEQCGYASTSYFIYAFRKHFGNSPKRVSKE 233
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 269-305 1.15e-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: 1.15e-03
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 488051604  269 SGKSVPEVSEAIGYPAHeHFQKLFKKKIGKTPSAYRK 305
Cdd:pfam00165   7 TNLTIADIADELGFSRS-YFSRLFKKYTGVTPSQYRH 42
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
211-307 3.72e-03

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 37.00  E-value: 3.72e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604 211 LEAIHHSLDKKWGLDDLAGIAGMSRTNYSVKFKELSGMTPLDYLTYCRLEKAKQLLKESGKSVPEVSEAIGYPAHEHFQK 290
Cdd:PRK11511  15 LDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYLAERYGFESQQTLTR 94

                         90
                 ....*....|....*..
gi 488051604 291 LFKKKIGKTPSAYRKEN 307
Cdd:PRK11511  95 TFKNYFDVPPHKYRMTN 111
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 206-305 7.32e-03

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 37.70  E-value: 7.32e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488051604 206 QLSKTLEAIHHSLDKKwGL--DDLAGIAGMS-RTNYSVkFKElSGMTPLDYLTYCRLEKAKQLLKE--SGKSVPEVSEAI 280
Cdd:PRK09685 198 QFQKVVALIDQSIQEE-ILrpEWIAGELGISvRSLYRL-FAE-QGLVVAQYIRNRRLDRCADDLRPaaDDEKITSIAYKW 274

                         90       100
                 ....*....|....*....|....*
gi 488051604 281 GYPAHEHFQKLFKKKIGKTPSAYRK 305
Cdd:PRK09685 275 GFSDSSHFSTAFKQRFGVSPGEYRR 299
 
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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