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Conserved domains on  [gi|1929352950|dbj|GFM88528|]
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AraC family transcriptional regulator [Pseudomonas cichorii]

Protein Classification

AraC family transcriptional regulator( domain architecture ID 12168325)

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
AraC_binding_2 pfam14525
AraC-binding-like domain; This domain is related to the AraC ligand binding domain pfam02311.
 36-213 7.21e-46

AraC-binding-like domain; This domain is related to the AraC ligand binding domain pfam02311.


:

Pssm-ID: 434015  Cd Length: 173  Bit Score: 154.00  E-value: 7.21e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950  36 RDGVSSVFKNHELRCTDkGERISARMHHVSRGRLSLNRLEYGARVQIDPGRLEDFFLIQVPLSGSAQIICGRHDFTSDAR 115
Cdd:pfam14525   2 REAVSRAFGPHRLRPLG-PDRFDARLRGVRLGGLSLGRLRYGAAVHIRPPELDDFYLLQLPLSGSAEIEQGGREVVLGPG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950 116 HASLISPNLPVSMRWDADSPQLALRIErseveyhCAQHLGHSLDRPVEFQPMLDLNTSGGSYFLHLITLLVDAITA-DEH 194
Cdd:pfam14525  81 DAVLLDPGRPYRLRWSEDCEQLVLRIP-------LRALLGRPLRRPLRFAPRLDLDSGLGALWLRLLRLLAAELAAlGPA 153

                         170
                  ....*....|....*....
gi 1929352950 195 PLHHALALKQFESMLINAL 213
Cdd:pfam14525 154 LASSPLVAAQLEELLASLL 172
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
253-338 3.15e-28

helix_turn_helix, arabinose operon control protein;


:

Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 104.94  E-value: 3.15e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950  253 PLSIEQLADHAGVSVRTLFAGFRDFSGTTPMAYLRNLRLEHAHEELLNqsQDVSVTDIAFKWGFAHLGRFAQEYKKRYGQ 332
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRD--TDLSVTEIALRVGFSSQSYFSRAFKKLFGV 78


                   ....*.
gi 1929352950  333 APSTTL 338
Cdd:smart00342  79 TPSEYR 84
 
Name Accession Description Interval E-value
AraC_binding_2 pfam14525
AraC-binding-like domain; This domain is related to the AraC ligand binding domain pfam02311.
 36-213 7.21e-46

AraC-binding-like domain; This domain is related to the AraC ligand binding domain pfam02311.


Pssm-ID: 434015  Cd Length: 173  Bit Score: 154.00  E-value: 7.21e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950  36 RDGVSSVFKNHELRCTDkGERISARMHHVSRGRLSLNRLEYGARVQIDPGRLEDFFLIQVPLSGSAQIICGRHDFTSDAR 115
Cdd:pfam14525   2 REAVSRAFGPHRLRPLG-PDRFDARLRGVRLGGLSLGRLRYGAAVHIRPPELDDFYLLQLPLSGSAEIEQGGREVVLGPG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950 116 HASLISPNLPVSMRWDADSPQLALRIErseveyhCAQHLGHSLDRPVEFQPMLDLNTSGGSYFLHLITLLVDAITA-DEH 194
Cdd:pfam14525  81 DAVLLDPGRPYRLRWSEDCEQLVLRIP-------LRALLGRPLRRPLRFAPRLDLDSGLGALWLRLLRLLAAELAAlGPA 153

                         170
                  ....*....|....*....
gi 1929352950 195 PLHHALALKQFESMLINAL 213
Cdd:pfam14525 154 LASSPLVAAQLEELLASLL 172
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
253-338 3.15e-28

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 104.94  E-value: 3.15e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950  253 PLSIEQLADHAGVSVRTLFAGFRDFSGTTPMAYLRNLRLEHAHEELLNqsQDVSVTDIAFKWGFAHLGRFAQEYKKRYGQ 332
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRD--TDLSVTEIALRVGFSSQSYFSRAFKKLFGV 78


                   ....*.
gi 1929352950  333 APSTTL 338
Cdd:smart00342  79 TPSEYR 84
HTH_18 pfam12833
Helix-turn-helix domain;
259-339 9.70e-26

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 98.43  E-value: 9.70e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950 259 LADHAGVSVRTLFAGFRDFSGTTPMAYLRNLRLEHAHEELLNQSqDVSVTDIAFKWGFAHLGRFAQEYKKRYGQAPSTTL 338
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEDT-GLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYR 79


                  .
gi 1929352950 339 R 339
Cdd:pfam12833  80 R 80
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 239-335 2.20e-22

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: 95.61  E-value: 2.20e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950 239 VKRTEEYMRVNAHEPLSIEQLADHAGVSVRTLFAGFRDFSGTTPMAYLRNLRLEHAHeELLNQSQDvSVTDIAFKWGFAH 318
Cdd:COG4977   212 LARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERAR-RLLETTDL-SIEEIAAACGFGS 289

                          90
                  ....*....|....*..
gi 1929352950 319 LGRFAQEYKKRYGQAPS 335
Cdd:COG4977   290 ASHFRRAFRRRFGVSPS 306
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
148-335 6.86e-19

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 84.83  E-value: 6.86e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950 148 YHCAQHLGHSLDRPVEFQPMLDLNTSGGSYFLHLITLLVDAITADEHPLHHALALKQFESMLINALIYGQPNNLKEQIDS 227
Cdd:COG2207    66 LLGLLLLLLLLLLGLLLLALLALLLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLL 145

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950 228 ASKPKAPLPYFVKRTEEYMrvnAHEPLSIEQLADHAGVSVRTLFAGFRDFSGTTPMAYLRNLRLEHAHEELLNqsQDVSV 307
Cdd:COG2207   146 LLLLLLLLLLLLLLLLLLL---LLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAE--TDLSI 220

                         170       180
                  ....*....|....*....|....*...
gi 1929352950 308 TDIAFKWGFAHLGRFAQEYKKRYGQAPS 335
Cdd:COG2207   221 SEIAYELGFSSQSHFSRAFKKRFGVTPS 248
PRK10130 PRK10130
HTH-type transcriptional regulator EutR;
190-341 2.67e-17

HTH-type transcriptional regulator EutR;


Pssm-ID: 182258 [Multi-domain]  Cd Length: 350  Bit Score: 81.50  E-value: 2.67e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950 190 TADEHP--LHHALALKQFESMLINALIY----GQPNNLKEQIDSASKPKaplpyFVKRTEEYMRVNAHEPLSIEQLADHA 263
Cdd:PRK10130  192 TFCENPenLHQPAVRKVLGDNLLMAMGAmleeAQPMVTAESISHQSYRR-----LLSRAREYVLENMSEPVTVLDLCNQL 266

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1929352950 264 GVSVRTLFAGFRDFSGTTPMAYLRNLRLEHAHEELLNQ-SQDVSVTDIAFKWGFAHLGRFAQEYKKRYGQAPSTTLRFR 341
Cdd:PRK10130  267 HVSRRTLQNAFHAILGIGPNAWLKRIRLNAVRRELISPwSQSTTVKDAAMQWGFWHLGQFATDYQQLFAEKPSLTLHQR 345
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 65-335 1.81e-13

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 70.06  E-value: 1.81e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950  65 SRGRLSLNRLEYGA----RVQIDPGRLED--FFLIqVPLSGSAQIICGRHDFTSDARHASLISPNLPVSMRWDADSPQLA 138
Cdd:PRK09685   41 DAGGLKLSTVTTNAvnlsRTWQEIKHSDDahFFTV-FQLSGHAIIEQDDRQVQLAAGDITLIDASRPCSIYPQGLSEQIS 119

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950 139 LRIERSEVEYHCAQHLGHSLDRpvefqpmLDLNTSGGsyflHLITLLVDAITADEH-PLHHALALKQfesmlinALIYGQ 217
Cdd:PRK09685  120 LLLPRELVEQYFPGQKPACAGR-------LSASLPMV----QLSHRLLQQSMNGPAlSETESEALLE-------ALIALL 181

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950 218 PNNLKEQIDSASKPKAPLPYFVKRTEEYMRvnaHEPLSIEQLADHAGVSVRTLFAGFRDfSGTTPMAYLRNLRLEHAHEE 297
Cdd:PRK09685  182 RPALHQRESVQPRRERQFQKVVALIDQSIQ---EEILRPEWIAGELGISVRSLYRLFAE-QGLVVAQYIRNRRLDRCADD 257

                         250       260       270
                  ....*....|....*....|....*....|....*...
gi 1929352950 298 LLNQSQDVSVTDIAFKWGFAHLGRFAQEYKKRYGQAPS 335
Cdd:PRK09685  258 LRPAADDEKITSIAYKWGFSDSSHFSTAFKQRFGVSPG 295
 
Name Accession Description Interval E-value
AraC_binding_2 pfam14525
AraC-binding-like domain; This domain is related to the AraC ligand binding domain pfam02311.
 36-213 7.21e-46

AraC-binding-like domain; This domain is related to the AraC ligand binding domain pfam02311.


Pssm-ID: 434015  Cd Length: 173  Bit Score: 154.00  E-value: 7.21e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950  36 RDGVSSVFKNHELRCTDkGERISARMHHVSRGRLSLNRLEYGARVQIDPGRLEDFFLIQVPLSGSAQIICGRHDFTSDAR 115
Cdd:pfam14525   2 REAVSRAFGPHRLRPLG-PDRFDARLRGVRLGGLSLGRLRYGAAVHIRPPELDDFYLLQLPLSGSAEIEQGGREVVLGPG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950 116 HASLISPNLPVSMRWDADSPQLALRIErseveyhCAQHLGHSLDRPVEFQPMLDLNTSGGSYFLHLITLLVDAITA-DEH 194
Cdd:pfam14525  81 DAVLLDPGRPYRLRWSEDCEQLVLRIP-------LRALLGRPLRRPLRFAPRLDLDSGLGALWLRLLRLLAAELAAlGPA 153

                         170
                  ....*....|....*....
gi 1929352950 195 PLHHALALKQFESMLINAL 213
Cdd:pfam14525 154 LASSPLVAAQLEELLASLL 172
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
253-338 3.15e-28

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 104.94  E-value: 3.15e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950  253 PLSIEQLADHAGVSVRTLFAGFRDFSGTTPMAYLRNLRLEHAHEELLNqsQDVSVTDIAFKWGFAHLGRFAQEYKKRYGQ 332
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRD--TDLSVTEIALRVGFSSQSYFSRAFKKLFGV 78


                   ....*.
gi 1929352950  333 APSTTL 338
Cdd:smart00342  79 TPSEYR 84
HTH_18 pfam12833
Helix-turn-helix domain;
259-339 9.70e-26

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 98.43  E-value: 9.70e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950 259 LADHAGVSVRTLFAGFRDFSGTTPMAYLRNLRLEHAHEELLNQSqDVSVTDIAFKWGFAHLGRFAQEYKKRYGQAPSTTL 338
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEDT-GLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYR 79


                  .
gi 1929352950 339 R 339
Cdd:pfam12833  80 R 80
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 239-335 2.20e-22

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: 95.61  E-value: 2.20e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950 239 VKRTEEYMRVNAHEPLSIEQLADHAGVSVRTLFAGFRDFSGTTPMAYLRNLRLEHAHeELLNQSQDvSVTDIAFKWGFAH 318
Cdd:COG4977   212 LARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERAR-RLLETTDL-SIEEIAAACGFGS 289

                          90
                  ....*....|....*..
gi 1929352950 319 LGRFAQEYKKRYGQAPS 335
Cdd:COG4977   290 ASHFRRAFRRRFGVSPS 306
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
148-335 6.86e-19

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 84.83  E-value: 6.86e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950 148 YHCAQHLGHSLDRPVEFQPMLDLNTSGGSYFLHLITLLVDAITADEHPLHHALALKQFESMLINALIYGQPNNLKEQIDS 227
Cdd:COG2207    66 LLGLLLLLLLLLLGLLLLALLALLLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLL 145

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950 228 ASKPKAPLPYFVKRTEEYMrvnAHEPLSIEQLADHAGVSVRTLFAGFRDFSGTTPMAYLRNLRLEHAHEELLNqsQDVSV 307
Cdd:COG2207   146 LLLLLLLLLLLLLLLLLLL---LLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAE--TDLSI 220

                         170       180
                  ....*....|....*....|....*...
gi 1929352950 308 TDIAFKWGFAHLGRFAQEYKKRYGQAPS 335
Cdd:COG2207   221 SEIAYELGFSSQSHFSRAFKKRFGVTPS 248
PRK10130 PRK10130
HTH-type transcriptional regulator EutR;
190-341 2.67e-17

HTH-type transcriptional regulator EutR;


Pssm-ID: 182258 [Multi-domain]  Cd Length: 350  Bit Score: 81.50  E-value: 2.67e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950 190 TADEHP--LHHALALKQFESMLINALIY----GQPNNLKEQIDSASKPKaplpyFVKRTEEYMRVNAHEPLSIEQLADHA 263
Cdd:PRK10130  192 TFCENPenLHQPAVRKVLGDNLLMAMGAmleeAQPMVTAESISHQSYRR-----LLSRAREYVLENMSEPVTVLDLCNQL 266

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1929352950 264 GVSVRTLFAGFRDFSGTTPMAYLRNLRLEHAHEELLNQ-SQDVSVTDIAFKWGFAHLGRFAQEYKKRYGQAPSTTLRFR 341
Cdd:PRK10130  267 HVSRRTLQNAFHAILGIGPNAWLKRIRLNAVRRELISPwSQSTTVKDAAMQWGFWHLGQFATDYQQLFAEKPSLTLHQR 345
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 227-335 1.28e-16

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: 79.71  E-value: 1.28e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950 227 SASKPKAPLpyfVKRTEEYMRVNAHEPLSIEQLADHAGVSVRTLFAGFRDFSGTTPMAYLRNLRLEHAHEELlnqSQDVS 306
Cdd:COG2169    77 PGSPPRADL---VARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLL---QTGLS 150

                          90       100
                  ....*....|....*....|....*....
gi 1929352950 307 VTDIAFKWGFAHLGRFAQEYKKRYGQAPS 335
Cdd:COG2169   151 VTDAAYAAGFGSLSRFYEAFKKLLGMTPS 179
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 65-335 1.81e-13

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 70.06  E-value: 1.81e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950  65 SRGRLSLNRLEYGA----RVQIDPGRLED--FFLIqVPLSGSAQIICGRHDFTSDARHASLISPNLPVSMRWDADSPQLA 138
Cdd:PRK09685   41 DAGGLKLSTVTTNAvnlsRTWQEIKHSDDahFFTV-FQLSGHAIIEQDDRQVQLAAGDITLIDASRPCSIYPQGLSEQIS 119

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950 139 LRIERSEVEYHCAQHLGHSLDRpvefqpmLDLNTSGGsyflHLITLLVDAITADEH-PLHHALALKQfesmlinALIYGQ 217
Cdd:PRK09685  120 LLLPRELVEQYFPGQKPACAGR-------LSASLPMV----QLSHRLLQQSMNGPAlSETESEALLE-------ALIALL 181

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950 218 PNNLKEQIDSASKPKAPLPYFVKRTEEYMRvnaHEPLSIEQLADHAGVSVRTLFAGFRDfSGTTPMAYLRNLRLEHAHEE 297
Cdd:PRK09685  182 RPALHQRESVQPRRERQFQKVVALIDQSIQ---EEILRPEWIAGELGISVRSLYRLFAE-QGLVVAQYIRNRRLDRCADD 257

                         250       260       270
                  ....*....|....*....|....*....|....*...
gi 1929352950 298 LLNQSQDVSVTDIAFKWGFAHLGRFAQEYKKRYGQAPS 335
Cdd:PRK09685  258 LRPAADDEKITSIAYKWGFSDSSHFSTAFKQRFGVSPG 295
ftrA PRK09393
transcriptional activator FtrA; Provisional
 244-335 1.18e-11

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 64.60  E-value: 1.18e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950 244 EYMRVNAHEPLSIEQLADHAGVSVRTLFAGFRDFSGTTPMAYLRNLRLEHAHEELlnQSQDVSVTDIAFKWGFAHLGRFA 323
Cdd:PRK09393  225 DWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLL--ESSALSIDQIAERAGFGSEESLR 302

                          90
                  ....*....|..
gi 1929352950 324 QEYKKRYGQAPS 335
Cdd:PRK09393  303 HHFRRRAATSPA 314
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
252-334 6.78e-09

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 56.22  E-value: 6.78e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950 252 EPLSIEQLADHAGVSVRTLFAGFRDFSGTTPMAYLRNLRLEHAHeELLNQSQDvSVTDIAFKWGFAHLGRFAQEYKKRYG 331
Cdd:PRK13503  186 EEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKAR-HLLRHSDA-SVTDIAYRCGFGDSNHFSTLFRREFS 263


                  ...
gi 1929352950 332 QAP 334
Cdd:PRK13503  264 WSP 266
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 246-287 3.26e-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: 40.60  E-value: 3.26e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1929352950 246 MRVNAHEPLSIEQLADHAGVSVRTLFAGFRDFSGTTPMAYLR 287
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYTGVTPSQYRH 42
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
244-335 3.46e-05

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 42.22  E-value: 3.46e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950 244 EYMRVNAHEPLSIEQLADHAGVSVRTLFAGFRDFSGTTPMAYLRNLRLEHAHEElLNQSQDvSVTDIAFKWGFAHLGRFA 323
Cdd:PRK10219   12 AWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVE-LRTTER-PIFDIAMDLGYVSQQTFS 89

                          90
                  ....*....|..
gi 1929352950 324 QEYKKRYGQAPS 335
Cdd:PRK10219   90 RVFRRQFDRTPS 101
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
213-335 6.46e-05

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 44.32  E-value: 6.46e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950 213 LIYGQPNNL--KEQIDSASKPKAPLPYFVKRTEEYMRVNAHEPLSIEQLADHAGVSVRTLFAGFRDFSGTTPMAYLRNLR 290
Cdd:PRK13500  180 LLFGQLVMLlnRHRYTSDSLPPTSSETLLDKLITRLAASLKSPFALDKFCDEASCSERVLRQQFRQQTGMTINQYLRQVR 259

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 1929352950 291 LEHAheELLNQSQDVSVTDIAFKWGFAHLGRFAQEYKKRYGQAPS 335
Cdd:PRK13500  260 VCHA--QYLLQHSRLLISDISTECGFEDSNYFSVVFTRETGMTPS 302
PRK10371 PRK10371
transcriptional regulator MelR;
237-334 2.90e-04

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 42.11  E-value: 2.90e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950 237 YFVKRTEEYMRVNAHEPLSIEQLADHAGVSVRTLFAGFRDFSGTTPMAYLRNLRLEHAhEELLNQSqDVSVTDIAFKWGF 316
Cdd:PRK10371  191 FYVSQMLGFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHV-RALLSDT-DKSILDIALTAGF 268

                          90
                  ....*....|....*...
gi 1929352950 317 AHLGRFAQEYKKRYGQAP 334
Cdd:PRK10371  269 RSSSRFYSTFGKYVGMSP 286
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
253-335 1.40e-03

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 40.04  E-value: 1.40e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1929352950 253 PLSIEQLADHAGVSVRTLFAGFRDFSGTTPMAYLRNLRLEHAheELLNQSQDVSVTDIAFKWGFAHLGRFAQEYKKRYGQ 332
Cdd:PRK13502  192 PFALDAFCQQEQCSERVLRQQFRAQTGMTINQYLRQVRICHA--QYLLQHSPLMISEISMQCGFEDSNYFSVVFTRETGM 269


                  ...
gi 1929352950 333 APS 335
Cdd:PRK13502  270 TPS 272
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
265-335 3.60e-03

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 38.73  E-value: 3.60e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1929352950 265 VSVRTLFAGFRDFSGTTPMAYLRNLRLEHAheELLNQSQDVSVTDIAFKWGFAHLGRFAQEYKKRYGQAPS 335
Cdd:PRK13501  204 LVERSLKQLFRQQTGMSISHYLRQIRLCHA--KCLLRGSEHRISDIAARCGFEDSNYFSAVFTREAGMTPR 272
 
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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