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Conserved domains on  [gi|635939953|gb|KDH20223|]
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hypothetical protein AE36_05116 [Klebsiella variicola]

Protein Classification

AraC family transcriptional regulator( domain architecture ID 13462103)

AraC family transcriptional regulator controls the expression of genes with diverse biological functions including metabolism, stress response, and virulence

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;
229-312 1.88e-29

helix_turn_helix, arabinose operon control protein;


:

Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 108.02  E-value: 1.88e-29
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635939953   229 PLSRESVAQAFYLSPNYLSHLFQKCGPMGFNEYLNHIRLEQARMLLKGHDMKVKDIAHACGFADSNYFCRLFRKTTERSP 308
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 635939953   309 SEYR 312
Cdd:smart00342  81 SEYR 84
PRK09685 super family cl35885
DNA-binding transcriptional activator FeaR; Provisional
 129-315 9.83e-09

DNA-binding transcriptional activator FeaR; Provisional


The actual alignment was detected with superfamily member PRK09685:

Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 55.81  E-value: 9.83e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635939953 129 LSILFDKQRLEcslQHWNGKAITVVEKRQALRRGPRVGSFLLQAL-NELRMQPQEQRTARSIVVSLLShchDLLGSQAQT 207
Cdd:PRK09685 118 ISLLLPRELVE---QYFPGQKPACAGRLSASLPMVQLSHRLLQQSmNGPALSETESEALLEALIALLR---PALHQRESV 191

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635939953 208 SSRSQALFEAIRQYMDAHYAEP-LSRESVAQAFYLSPNYLSHLFQKCGpMGFNEYLNHIRLEQARMLLKGH--DMKVKDI 284
Cdd:PRK09685 192 QPRRERQFQKVVALIDQSIQEEiLRPEWIAGELGISVRSLYRLFAEQG-LVVAQYIRNRRLDRCADDLRPAadDEKITSI 270

                        170       180       190
                 ....*....|....*....|....*....|.
gi 635939953 285 AHACGFADSNYFCRLFRKTTERSPSEYRRQY 315
Cdd:PRK09685 271 AYKWGFSDSSHFSTAFKQRFGVSPGEYRRKF 301
 
Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
229-312 1.88e-29

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 108.02  E-value: 1.88e-29
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635939953   229 PLSRESVAQAFYLSPNYLSHLFQKCGPMGFNEYLNHIRLEQARMLLKGHDMKVKDIAHACGFADSNYFCRLFRKTTERSP 308
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 635939953   309 SEYR 312
Cdd:smart00342  81 SEYR 84
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 202-318 2.11e-25

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: 103.70  E-value: 2.11e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635939953 202 GSQAQTSSRSQAL------FEAIRQYMDAHYAEPLSRESVAQAFYLSPNYLSHLFQK---CGPMgfnEYLNHIRLEQARM 272
Cdd:COG4977  193 GGQAQFSPLLVPLghrdprLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAatgTTPA---RYLQRLRLERARR 269

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 635939953 273 LLKGHDMKVKDIAHACGFADSNYFCRLFRKTTERSPSEYRRQYHSQ 318
Cdd:COG4977  270 LLETTDLSIEEIAAACGFGSASHFRRAFRRRFGVSPSAYRRRFRAR 315
HTH_18 pfam12833
Helix-turn-helix domain;
235-314 2.61e-23

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 91.50  E-value: 2.61e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635939953  235 VAQAFYLSPNYLSHLFQKCGPMGFNEYLNHIRLEQAR-MLLKGHDMKVKDIAHACGFADSNYFCRLFRKTTERSPSEYRR 313
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARrLLLEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 635939953  314 Q 314
Cdd:pfam12833  81 R 81
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
177-319 2.59e-18

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 83.19  E-value: 2.59e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635939953 177 RMQPQEQRTARSIVVSLLShchdLL--GSQAQTSSRSQALFEAIRQYMDAHYAEPLSRESVAQAFYLSPNYL-SHLFQKC 253
Cdd:PRK13503 137 SNDLEAIASREILFMQLLV----LLrkSSLQENGENSDARLNQLLAWLEDHFAEEVNWEALADQFSLSLRTLhRQLKQQT 212

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 635939953 254 GpMGFNEYLNHIRLEQARMLLKGHDMKVKDIAHACGFADSNYFCRLFRKTTERSPSEYRRQYHSQL 319
Cdd:PRK13503 213 G-LTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDSNHFSTLFRREFSWSPRDIRQGRDGFL 277
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 129-315 9.83e-09

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 55.81  E-value: 9.83e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635939953 129 LSILFDKQRLEcslQHWNGKAITVVEKRQALRRGPRVGSFLLQAL-NELRMQPQEQRTARSIVVSLLShchDLLGSQAQT 207
Cdd:PRK09685 118 ISLLLPRELVE---QYFPGQKPACAGRLSASLPMVQLSHRLLQQSmNGPALSETESEALLEALIALLR---PALHQRESV 191

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635939953 208 SSRSQALFEAIRQYMDAHYAEP-LSRESVAQAFYLSPNYLSHLFQKCGpMGFNEYLNHIRLEQARMLLKGH--DMKVKDI 284
Cdd:PRK09685 192 QPRRERQFQKVVALIDQSIQEEiLRPEWIAGELGISVRSLYRLFAEQG-LVVAQYIRNRRLDRCADDLRPAadDEKITSI 270

                        170       180       190
                 ....*....|....*....|....*....|.
gi 635939953 285 AHACGFADSNYFCRLFRKTTERSPSEYRRQY 315
Cdd:PRK09685 271 AYKWGFSDSSHFSTAFKQRFGVSPGEYRRKF 301
 
Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
229-312 1.88e-29

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 108.02  E-value: 1.88e-29
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635939953   229 PLSRESVAQAFYLSPNYLSHLFQKCGPMGFNEYLNHIRLEQARMLLKGHDMKVKDIAHACGFADSNYFCRLFRKTTERSP 308
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 635939953   309 SEYR 312
Cdd:smart00342  81 SEYR 84
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 202-318 2.11e-25

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: 103.70  E-value: 2.11e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635939953 202 GSQAQTSSRSQAL------FEAIRQYMDAHYAEPLSRESVAQAFYLSPNYLSHLFQK---CGPMgfnEYLNHIRLEQARM 272
Cdd:COG4977  193 GGQAQFSPLLVPLghrdprLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAatgTTPA---RYLQRLRLERARR 269

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 635939953 273 LLKGHDMKVKDIAHACGFADSNYFCRLFRKTTERSPSEYRRQYHSQ 318
Cdd:COG4977  270 LLETTDLSIEEIAAACGFGSASHFRRAFRRRFGVSPSAYRRRFRAR 315
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
227-318 9.27e-25

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 100.62  E-value: 9.27e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635939953 227 AEPLSRESVAQAFYLSPNYLSHLFQKCGPMGFNEYLNHIRLEQARMLLKGHDMKVKDIAHACGFADSNYFCRLFRKTTER 306
Cdd:COG2207  166 LLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGV 245

                         90
                 ....*....|..
gi 635939953 307 SPSEYRRQYHSQ 318
Cdd:COG2207  246 TPSEYRKRLRAR 257
HTH_18 pfam12833
Helix-turn-helix domain;
235-314 2.61e-23

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 91.50  E-value: 2.61e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635939953  235 VAQAFYLSPNYLSHLFQKCGPMGFNEYLNHIRLEQAR-MLLKGHDMKVKDIAHACGFADSNYFCRLFRKTTERSPSEYRR 313
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARrLLLEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 635939953  314 Q 314
Cdd:pfam12833  81 R 81
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
177-319 2.59e-18

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 83.19  E-value: 2.59e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635939953 177 RMQPQEQRTARSIVVSLLShchdLL--GSQAQTSSRSQALFEAIRQYMDAHYAEPLSRESVAQAFYLSPNYL-SHLFQKC 253
Cdd:PRK13503 137 SNDLEAIASREILFMQLLV----LLrkSSLQENGENSDARLNQLLAWLEDHFAEEVNWEALADQFSLSLRTLhRQLKQQT 212

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 635939953 254 GpMGFNEYLNHIRLEQARMLLKGHDMKVKDIAHACGFADSNYFCRLFRKTTERSPSEYRRQYHSQL 319
Cdd:PRK13503 213 G-LTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDSNHFSTLFRREFSWSPRDIRQGRDGFL 277
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 204-314 2.76e-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: 81.64  E-value: 2.76e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635939953 204 QAQTSSRSQALFEAIRQYMDAHYAEPLSRESVAQAFYLSPNYLSHLFQKCGPMGFNEYLNHIRLEQARMLLKGhDMKVKD 283
Cdd:COG2169   75 LAPGSPPRADLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLLQT-GLSVTD 153

                         90       100       110
                 ....*....|....*....|....*....|.
gi 635939953 284 IAHACGFADSNYFCRLFRKTTERSPSEYRRQ 314
Cdd:COG2169  154 AAYAAGFGSLSRFYEAFKKLLGMTPSAYRRG 184
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
220-315 1.93e-14

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 72.31  E-value: 1.93e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635939953 220 QYMDAHYAEPLSRESVAQAFYLSPNYLSHLF-QKCGpMGFNEYLNHIRLEQARMLLKGHDMKVKDIAHACGFADSNYFCR 298
Cdd:PRK10572 190 QYISDHLASEFDIESVAQHVCLSPSRLAHLFrQQLG-ISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQLYFSR 268

                         90
                 ....*....|....*..
gi 635939953 299 LFRKTTERSPSEYRRQY 315
Cdd:PRK10572 269 VFKKCTGASPSEFRARC 285
PRK10371 PRK10371
transcriptional regulator MelR;
202-313 4.72e-13

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 68.69  E-value: 4.72e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635939953 202 GSQAQTSSRSQALFEAIRQYMDAHYAEPLSRESVAQAFYLSPNYLSHLFQKCGPMGFNEYLNHIRLEQARMLLKGHDMKV 281
Cdd:PRK10371 180 THKNSVSRHAQFYVSQMLGFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLSDTDKSI 259

                         90       100       110
                 ....*....|....*....|....*....|..
gi 635939953 282 KDIAHACGFADSNYFCRLFRKTTERSPSEYRR 313
Cdd:PRK10371 260 LDIALTAGFRSSSRFYSTFGKYVGMSPQQYRK 291
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
241-315 6.25e-13

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 68.01  E-value: 6.25e-13
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 635939953 241 LSPNYLSHLFQKCGPMGFNEYLNHIRLEQARMLLKGHDMKVKDIAHACGFADSNYFCRLFRKTTERSPSEYRRQY 315
Cdd:PRK13501 204 LVERSLKQLFRQQTGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFSAVFTREAGMTPRDYRQRF 278
ftrA PRK09393
transcriptional activator FtrA; Provisional
 184-315 1.50e-10

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 61.13  E-value: 1.50e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635939953 184 RTARSIVVSllSHCHdllGSQAQTSSRSQALFEAIR-----QYMDAHYAEPLSRESVAQAFYLSPNYLSHLFQKCGPMGF 258
Cdd:PRK09393 189 RVARRLVVP--PHRD---GGQAQFVPRPVASRESDRlgpliDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTP 263

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 635939953 259 NEYLNHIRLEQARMLLKGHDMKVKDIAHACGFADSNYFCRLFRKTTERSPSEYRRQY 315
Cdd:PRK09393 264 AEWLLRERLARARDLLESSALSIDQIAERAGFGSEESLRHHFRRRAATSPAAYRKRF 320
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
203-312 1.68e-09

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 58.19  E-value: 1.68e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635939953 203 SQAQTSSRSQALFEAIRQYMDAHYAEPLSRESVAQAFYLSPNYLSHLFQKCGPMGFNEYLNHIRLEQARMLLKGHDMKVK 282
Cdd:PRK13500 196 SDSLPPTSSETLLDKLITRLAASLKSPFALDKFCDEASCSERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQHSRLLIS 275

                         90       100       110
                 ....*....|....*....|....*....|
gi 635939953 283 DIAHACGFADSNYFCRLFRKTTERSPSEYR 312
Cdd:PRK13500 276 DISTECGFEDSNYFSVVFTRETGMTPSQWR 305
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
209-312 1.70e-09

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 57.76  E-value: 1.70e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635939953 209 SRSQALFEAIRQYMDAHYAEPLSRESVAQAFYLSPNYLSHLFQKCGPMGFNEYLNHIRLEQARMLLKGHDMKVKDIAHAC 288
Cdd:PRK13502 172 TSRETLLDKLITALANSLECPFALDAFCQQEQCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQC 251

                         90       100
                 ....*....|....*....|....
gi 635939953 289 GFADSNYFCRLFRKTTERSPSEYR 312
Cdd:PRK13502 252 GFEDSNYFSVVFTRETGMTPSQWR 275
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 277-313 3.85e-09

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: 51.77  E-value: 3.85e-09
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 635939953  277 HDMKVKDIAHACGFaDSNYFCRLFRKTTERSPSEYRR 313
Cdd:pfam00165   7 TNLTIADIADELGF-SRSYFSRLFKKYTGVTPSQYRH 42
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 129-315 9.83e-09

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 55.81  E-value: 9.83e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635939953 129 LSILFDKQRLEcslQHWNGKAITVVEKRQALRRGPRVGSFLLQAL-NELRMQPQEQRTARSIVVSLLShchDLLGSQAQT 207
Cdd:PRK09685 118 ISLLLPRELVE---QYFPGQKPACAGRLSASLPMVQLSHRLLQQSmNGPALSETESEALLEALIALLR---PALHQRESV 191

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635939953 208 SSRSQALFEAIRQYMDAHYAEP-LSRESVAQAFYLSPNYLSHLFQKCGpMGFNEYLNHIRLEQARMLLKGH--DMKVKDI 284
Cdd:PRK09685 192 QPRRERQFQKVVALIDQSIQEEiLRPEWIAGELGISVRSLYRLFAEQG-LVVAQYIRNRRLDRCADDLRPAadDEKITSI 270

                        170       180       190
                 ....*....|....*....|....*....|.
gi 635939953 285 AHACGFADSNYFCRLFRKTTERSPSEYRRQY 315
Cdd:PRK09685 271 AYKWGFSDSSHFSTAFKQRFGVSPGEYRRKF 301
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
212-314 2.21e-08

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 51.46  E-value: 2.21e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635939953 212 QALFEAIRQYMDAHYAEPLSRESVAQAFYLSPNYLSHLFQKCGPMGFNEYLNHIRLEQARMLLKGHDMKVKDIAHACGFA 291
Cdd:PRK10219   4 QKIIQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYV 83

                         90       100
                 ....*....|....*....|...
gi 635939953 292 DSNYFCRLFRKTTERSPSEYRRQ 314
Cdd:PRK10219  84 SQQTFSRVFRRQFDRTPSDYRHR 106
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 235-316 3.16e-06

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 48.00  E-value: 3.16e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635939953 235 VAQAFYLSPNYLSHLFQKCGpMGFNEYLNHIRLEQARMLLKGHDMKVKDIAHACGFADSNYFCRLFRKTTERSPSEY--R 312
Cdd:PRK09978 164 IASELLMSPSLLKKKLREEE-TSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTPTEYqeR 242


                 ....
gi 635939953 313 RQYH 316
Cdd:PRK09978 243 SAQG 246
PRK09940 PRK09940
transcriptional regulator YdeO; Provisional
 218-318 4.86e-05

transcriptional regulator YdeO; Provisional


Pssm-ID: 182157 [Multi-domain]  Cd Length: 253  Bit Score: 44.31  E-value: 4.86e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 635939953 218 IRQYMDAHYAEPLSRESVAQAFYLSPNYLSHLFQKcGPMGFNEYLNHIRLEQARMLLKgHDMKVKDIAHACGFADSNYFC 297
Cdd:PRK09940 139 VRNIVNMKLAHPWKLKDICDCLYISESLLKKKLKQ-EQTTFSQILLDARMQHAKNLIR-VEGSVNKIAEQCGYASTSYFI 216

                         90       100
                 ....*....|....*....|.
gi 635939953 298 RLFRKTTERSPSEYRRQYHSQ 318
Cdd:PRK09940 217 YAFRKHFGNSPKRVSKEYRCQ 237
PRK15186 PRK15186
AraC family transcriptional regulator; Provisional
 233-311 8.02e-04

AraC family transcriptional regulator; Provisional


Pssm-ID: 185108 [Multi-domain]  Cd Length: 291  Bit Score: 40.43  E-value: 8.02e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 635939953 233 ESVAQAFYLSPNYLSHLFQKcGPMGFNEYLNHIRLEQARMLLKGHDMKVKDIAHACGFADSNYFCRLFRKTTERSPSEY 311
Cdd:PRK15186 201 KDISDSLYMSCSTLKRKLKQ-ENTSFSEVYLNARMNKATKLLRNSEYNITRVAYMCGYDSASYFTCVFKKHFKTTPSEF 278
PRK10296 PRK10296
DNA-binding transcriptional regulator ChbR; Provisional
 255-317 9.03e-04

DNA-binding transcriptional regulator ChbR; Provisional


Pssm-ID: 182362 [Multi-domain]  Cd Length: 278  Bit Score: 40.51  E-value: 9.03e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 635939953 255 PMgfnEYLNHIRLEQARMLLKGHDMKVKDIAHACGFADSNYFCRLFRKTTERSPSEYRRQYHS 317
Cdd:PRK10296 217 PM---QIINEIRINFAKKQLEMTNYSVTDIAFEAGYSSPSLFIKTFKKLTSFTPGSYRKKLTE 276
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 222-263 4.96e-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: 34.44  E-value: 4.96e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 635939953  222 MDAHYAEPLSRESVAQAFYLSPNYLSHLFQK-CGpMGFNEYLN 263
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKyTG-VTPSQYRH 42
 
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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