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Conserved domains on  [gi|2752096016|ref|WP_353505603|]
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AraC family transcriptional regulator [Vibrio sp. SCSIO 43136]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 11454391)

helix-turn-helix (HTH) domain-containing protein with an AraC family HTH domain, binds DNA and may function as a transcriptional regulator

CATH:  1.10.10.60
Gene Ontology:  GO:0003700|GO:0003677
PubMed:  10473770|15808743|8831795

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
67-216 1.61e-24

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


:

Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 97.54  E-value: 1.61e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2752096016  67 HNSKKPHQQFMCVLEVLITLAEDPQTKKIASTPSSFIQVANDDVALERVESARGFIEDHYAKQIKISDLCQAIHLSESST 146
Cdd:COG2207   106 LLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLTLEELARELGLSPRTL 185

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2752096016 147 YRLFEKHFNESFSEHLKRFRTGKASELLVNTRYPIALIAEKTGFNNLSNFNRQFKTVKGMTPSEFRTKFK 216
Cdd:COG2207   186 SRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKRLR 255
 
Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
67-216 1.61e-24

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 97.54  E-value: 1.61e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2752096016  67 HNSKKPHQQFMCVLEVLITLAEDPQTKKIASTPSSFIQVANDDVALERVESARGFIEDHYAKQIKISDLCQAIHLSESST 146
Cdd:COG2207   106 LLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLTLEELARELGLSPRTL 185

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2752096016 147 YRLFEKHFNESFSEHLKRFRTGKASELLVNTRYPIALIAEKTGFNNLSNFNRQFKTVKGMTPSEFRTKFK 216
Cdd:COG2207   186 SRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKRLR 255
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
129-212 1.67e-22

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 87.22  E-value: 1.67e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2752096016  129 QIKISDLCQAIHLSESSTYRLFEKHFNESFSEHLKRFRTGKASELLVNTRYPIALIAEKTGFNNLSNFNRQFKTVKGMTP 208
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 2752096016  209 SEFR 212
Cdd:smart00342  81 SEYR 84
HTH_18 pfam12833
Helix-turn-helix domain;
135-214 3.08e-22

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 86.49  E-value: 3.08e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2752096016 135 LCQAIHLSESSTYRLFEKHFNESFSEHLKRFRTGKASELLV-NTRYPIALIAEKTGFNNLSNFNRQFKTVKGMTPSEFRT 213
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLeDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 2752096016 214 K 214
Cdd:pfam12833  81 R 81
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
67-214 4.10e-11

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 61.14  E-value: 4.10e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2752096016  67 HNSKKPHQQF--MCVLEVLITlaedpqtKKIASTPSSFIQVANddvalERVESARGFIEDHYAKQIKISDLCQAIHLSES 144
Cdd:PRK10572  147 GQSEGRYSELlaMNLLERLLL-------RCMEAIPESLHPPMD-----PRVREACQYISDHLASEFDIESVAQHVCLSPS 214

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2752096016 145 styRLfeKH-FNESFSEHLKRFR----TGKASELLVNTRYPIALIAEKTGFNNLSNFNRQFKTVKGMTPSEFRTK 214
Cdd:PRK10572  215 ---RL--AHlFRQQLGISVLRWRedqrISRAKLLLQTTRMPIATIGRNVGYDDQLYFSRVFKKCTGASPSEFRAR 284
 
Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
67-216 1.61e-24

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 97.54  E-value: 1.61e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2752096016  67 HNSKKPHQQFMCVLEVLITLAEDPQTKKIASTPSSFIQVANDDVALERVESARGFIEDHYAKQIKISDLCQAIHLSESST 146
Cdd:COG2207   106 LLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLTLEELARELGLSPRTL 185

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2752096016 147 YRLFEKHFNESFSEHLKRFRTGKASELLVNTRYPIALIAEKTGFNNLSNFNRQFKTVKGMTPSEFRTKFK 216
Cdd:COG2207   186 SRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKRLR 255
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
129-212 1.67e-22

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 87.22  E-value: 1.67e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2752096016  129 QIKISDLCQAIHLSESSTYRLFEKHFNESFSEHLKRFRTGKASELLVNTRYPIALIAEKTGFNNLSNFNRQFKTVKGMTP 208
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 2752096016  209 SEFR 212
Cdd:smart00342  81 SEYR 84
HTH_18 pfam12833
Helix-turn-helix domain;
135-214 3.08e-22

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 86.49  E-value: 3.08e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2752096016 135 LCQAIHLSESSTYRLFEKHFNESFSEHLKRFRTGKASELLV-NTRYPIALIAEKTGFNNLSNFNRQFKTVKGMTPSEFRT 213
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLeDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 2752096016 214 K 214
Cdd:pfam12833  81 R 81
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 113-215 2.22e-20

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: 87.14  E-value: 2.22e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2752096016 113 ERVESARGFIEDHYAKQIKISDLCQAIHLSESSTYRLFEKHFNESFSEHLKRFRTGKASELLVNTRYPIALIAEKTGFNN 192
Cdd:COG4977   210 PRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGS 289

                          90       100
                  ....*....|....*....|...
gi 2752096016 193 LSNFNRQFKTVKGMTPSEFRTKF 215
Cdd:COG4977   290 ASHFRRAFRRRFGVSPSAYRRRF 312
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 104-220 8.04e-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: 77.79  E-value: 8.04e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2752096016 104 QVANDDVALERVESARGFIEDHYAKQIKISDLCQAIHLSESSTYRLFEKHFNESFSEHLKRFRTGKASELLvNTRYPIAL 183
Cdd:COG2169    75 LAPGSPPRADLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLL-QTGLSVTD 153

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 2752096016 184 IAEKTGFNNLSNFNRQFKTVKGMTPSEFRTKFKLMDR 220
Cdd:COG2169   154 AAYAAGFGSLSRFYEAFKKLLGMTPSAYRRGGAGAAI 190
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
67-214 4.10e-11

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 61.14  E-value: 4.10e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2752096016  67 HNSKKPHQQF--MCVLEVLITlaedpqtKKIASTPSSFIQVANddvalERVESARGFIEDHYAKQIKISDLCQAIHLSES 144
Cdd:PRK10572  147 GQSEGRYSELlaMNLLERLLL-------RCMEAIPESLHPPMD-----PRVREACQYISDHLASEFDIESVAQHVCLSPS 214

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2752096016 145 styRLfeKH-FNESFSEHLKRFR----TGKASELLVNTRYPIALIAEKTGFNNLSNFNRQFKTVKGMTPSEFRTK 214
Cdd:PRK10572  215 ---RL--AHlFRQQLGISVLRWRedqrISRAKLLLQTTRMPIATIGRNVGYDDQLYFSRVFKKCTGASPSEFRAR 284
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
132-215 4.97e-08

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 52.21  E-value: 4.97e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2752096016 132 ISDLCQAIHLSESSTYRLFEKHFNESFSEHLKRFRTGKASELLVNTRYPIALIAEKTGFNNLSNFNRQFKTVKGMTPSEF 211
Cdd:PRK13501  195 MADFCHKNQLVERSLKQLFRQQTGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFSAVFTREAGMTPRDY 274


                  ....
gi 2752096016 212 RTKF 215
Cdd:PRK13501  275 RQRF 278
ftrA PRK09393
transcriptional activator FtrA; Provisional
 121-215 6.59e-08

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 51.89  E-value: 6.59e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2752096016 121 FIEDHYAKQIKISDLCQAIHLSEsstyRLFEKHFNE----SFSEHLKRFRTGKASELLVNTRYPIALIAEKTGFNNLSNF 196
Cdd:PRK09393  226 WMRAHLAEPHTVASLAARAAMSP----RTFLRRFEAatgmTPAEWLLRERLARARDLLESSALSIDQIAERAGFGSEESL 301

                          90
                  ....*....|....*....
gi 2752096016 197 NRQFKTVKGMTPSEFRTKF 215
Cdd:PRK09393  302 RHHFRRRAATSPAAYRKRF 320
PRK10371 PRK10371
transcriptional regulator MelR;
111-212 5.26e-07

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 49.05  E-value: 5.26e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2752096016 111 ALERVESARGFIEDHYAKQIKISDLCQAIHLSESSTYRLFEKHFNESFSEHLKRFRTGKASELLVNTRYPIALIAEKTGF 190
Cdd:PRK10371  189 AQFYVSQMLGFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLSDTDKSILDIALTAGF 268

                          90       100
                  ....*....|....*....|..
gi 2752096016 191 NNLSNFNRQFKTVKGMTPSEFR 212
Cdd:PRK10371  269 RSSSRFYSTFGKYVGMSPQQYR 290
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 117-215 5.41e-07

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 49.26  E-value: 5.41e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2752096016 117 SARGFiedHYAKQIkISDLCQAIHL-----------SESSTYRLFEKHfNESFSEHLKRFRTGKASELLVN--TRYPIAL 183
Cdd:PRK09685  195 RERQF---QKVVAL-IDQSIQEEILrpewiagelgiSVRSLYRLFAEQ-GLVVAQYIRNRRLDRCADDLRPaaDDEKITS 269

                          90       100       110
                  ....*....|....*....|....*....|..
gi 2752096016 184 IAEKTGFNNLSNFNRQFKTVKGMTPSEFRTKF 215
Cdd:PRK09685  270 IAYKWGFSDSSHFSTAFKQRFGVSPGEYRRKF 301
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
69-212 4.78e-06

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 46.21  E-value: 4.78e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2752096016  69 SKKPHQQFMCVLEVLITLAEDPQTKKIASTPSSFIQV----------ANDDVALERVESARGFIEDHYAKQIKISDLCQA 138
Cdd:PRK13503  117 NQSVLQQVRQLVAQMEQQEESNDLEAIASREILFMQLlvllrksslqENGENSDARLNQLLAWLEDHFAEEVNWEALADQ 196

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2752096016 139 IHLSESSTYRLFEKHFNESFSEHLKRFRTGKASELLVNTRYPIALIAEKTGFNNLSNFNRQFKTVKGMTPSEFR 212
Cdd:PRK13503  197 FSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDSNHFSTLFRREFSWSPRDIR 270
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
22-212 1.85e-05

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 44.71  E-value: 1.85e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2752096016  22 RPQWLEGLIEATPELRILKTLLQESKYGLSYSNETAEKIYS----LLNNH---NSKKPHQQFMCVLEVLITlaedpqtKK 94
Cdd:PRK13500  143 QPHWRLGSVGMAQARQVIGQLEHESSQHVPFANEMAELLFGqlvmLLNRHrytSDSLPPTSSETLLDKLIT-------RL 215

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2752096016  95 IASTPSSFiqvanddvALERvesargfiedhyakqikisdLCQAIHLSESSTYRLFEKHFNESFSEHLKRFRTGKASELL 174
Cdd:PRK13500  216 AASLKSPF--------ALDK--------------------FCDEASCSERVLRQQFRQQTGMTINQYLRQVRVCHAQYLL 267

                         170       180       190
                  ....*....|....*....|....*....|....*...
gi 2752096016 175 VNTRYPIALIAEKTGFNNLSNFNRQFKTVKGMTPSEFR 212
Cdd:PRK13500  268 QHSRLLISDISTECGFEDSNYFSVVFTRETGMTPSQWR 305
PRK15186 PRK15186
AraC family transcriptional regulator; Provisional
 127-211 7.43e-05

AraC family transcriptional regulator; Provisional


Pssm-ID: 185108 [Multi-domain]  Cd Length: 291  Bit Score: 42.75  E-value: 7.43e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2752096016 127 AKQIKISDLCQAIHLSESSTYRLFeKHFNESFSEHLKRFRTGKASELLVNTRYPIALIAEKTGFNNLSNFNRQFKTVKGM 206
Cdd:PRK15186  195 SRKWALKDISDSLYMSCSTLKRKL-KQENTSFSEVYLNARMNKATKLLRNSEYNITRVAYMCGYDSASYFTCVFKKHFKT 273


                  ....*
gi 2752096016 207 TPSEF 211
Cdd:PRK15186  274 TPSEF 278
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 122-163 9.65e-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: 38.67  E-value: 9.65e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 2752096016 122 IEDHYAKQIKISDLCQAIHLSESSTYRLFEKHFNESFSEHLK 163
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYTGVTPSQYRH 42
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
135-212 2.71e-04

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 41.19  E-value: 2.71e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2752096016 135 LCQAIHLSESSTYRLFEKHFNESFSEHLKRFRTGKASELLVNTRYPIALIAEKTGFNNLSNFNRQFKTVKGMTPSEFR 212
Cdd:PRK13502  198 FCQQEQCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQCGFEDSNYFSVVFTRETGMTPSQWR 275
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
121-212 2.86e-04

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 39.14  E-value: 2.86e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2752096016 121 FIEDHYAKQIKISDLCQAIHLSESSTYRLFEKHFNESFSEHLKRFRTGKASELLVNTRYPIALIAEKTGFNNLSNFNRQF 200
Cdd:PRK10219   13 WIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQTFSRVF 92

                          90
                  ....*....|..
gi 2752096016 201 KTVKGMTPSEFR 212
Cdd:PRK10219   93 RRQFDRTPSDYR 104
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
 33-211 3.20e-04

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 40.75  E-value: 3.20e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2752096016  33 TPELRILKTLLQESKYGLSYSNETAEKIYSLLNNHNSKKPHQQFMCVLEVLITLAEDPQTKKIASTpSSFIQVAnddval 112
Cdd:PRK15185  136 TPDFPARREVFEHLKTAFSCTKDTSKGCSNCNNKSCIENEELIPYFLLFLLTAFLRLPESYEIILS-SAQITLK------ 208

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2752096016 113 ERVESargFIEDHYAKQIKISDLCQAIHLSESSTYRLFEKHfNESFSEHLKRFRTGKASELLVNTRYPIALIAEKTGFNN 192
Cdd:PRK15185  209 ERVYN---IISSSPSRQWKLTDVADHIFMSTSTLKRKLAEE-GTSFSDIYLSARMNQAAKLLRIGNHNVNAVALKCGYDS 284

                         170
                  ....*....|....*....
gi 2752096016 193 LSNFNRQFKTVKGMTPSEF 211
Cdd:PRK15185  285 TSYFIQCFKKYFKTTPSTF 303
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
115-212 9.86e-04

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 38.16  E-value: 9.86e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2752096016 115 VESARGFIEDHYAKQIKISDLCQAIHLSESSTYRLFEKHFNESFSEHLKRFRTGKASELLVNTRYPIALIAEKTGFNNLS 194
Cdd:PRK11511   11 IHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYLAERYGFESQQ 90

                          90
                  ....*....|....*...
gi 2752096016 195 NFNRQFKTVKGMTPSEFR 212
Cdd:PRK11511   91 TLTRTFKNYFDVPPHKYR 108
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 177-213 1.86e-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: 35.21  E-value: 1.86e-03
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 2752096016 177 TRYPIALIAEKTGFNnLSNFNRQFKTVKGMTPSEFRT 213
Cdd:pfam00165   7 TNLTIADIADELGFS-RSYFSRLFKKYTGVTPSQYRH 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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