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Conserved domains on  [gi|823112817|ref|WP_047034117|]
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MULTISPECIES: AraC family transcriptional regulator [Elizabethkingia]

Protein Classification

AraC family transcriptional regulator( domain architecture ID 13303769)

AraC family transcriptional regulator containing an AraC family helix-turn-helix (HTH) DNA-binding domain and a cupin-like effector/ligand-binding domain, 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
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
202-293 5.81e-21

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


:

Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 89.84  E-value: 5.81e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 823112817 202 LEHKSVLFYANALSVSENYLHRCIKETIGEAPKEWINKVSILQSQLLLQDLTKSISEIAFELNYGDPSYFGRLFKKITGV 281
Cdd:COG2207  166 LLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGV 245

                         90
                 ....*....|..
gi 823112817 282 TPSEYRTAFMQD 293
Cdd:COG2207  246 TPSEYRKRLRAR 257
PRK13502 super family cl32883
HTH-type transcriptional activator RhaR;
50-287 1.97e-04

HTH-type transcriptional activator RhaR;


The actual alignment was detected with superfamily member PRK13502:

Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 42.35  E-value: 1.97e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 823112817  50 HRPEFNFIVHITKGNAKQQVDANLVPIKEDEILFVRQGNVTSLVEVSpDAAGHMILFEDQTLNQLLSKQELIKLFSAnvV 129
Cdd:PRK13502  34 HTHEFCELVMVWRGNGLHVLNERPYRITRGDLFYIRAEDKHSYTSVN-DLVLQNIIYCPERLKLNVNWQAMIPGFQG--A 110

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 823112817 130 IHLP--KESSIWLNSLFELVTT---EIYQQDPNLGICYSLFQAGLQKIFTSAKELNKNMNRSAEITFNFKEL-VYKNYLE 203
Cdd:PRK13502 111 QWHPhwRLGSMGMNQARQVINQlehESNGRDPLANEMAELLFGQLVMTLKRHRYATDDLPATSRETLLDKLItALANSLE 190

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 823112817 204 HKSVL-FYANALSVSENYLHRCIKETIGEAPKEWINKVSILQSQLLLQDLTKSISEIAFELNYGDPSYFGRLFKKITGVT 282
Cdd:PRK13502 191 CPFALdAFCQQEQCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQCGFEDSNYFSVVFTRETGMT 270


                 ....*
gi 823112817 283 PSEYR 287
Cdd:PRK13502 271 PSQWR 275
 
Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
202-293 5.81e-21

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 89.84  E-value: 5.81e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 823112817 202 LEHKSVLFYANALSVSENYLHRCIKETIGEAPKEWINKVSILQSQLLLQDLTKSISEIAFELNYGDPSYFGRLFKKITGV 281
Cdd:COG2207  166 LLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGV 245

                         90
                 ....*....|..
gi 823112817 282 TPSEYRTAFMQD 293
Cdd:COG2207  246 TPSEYRKRLRAR 257
HTH_18 pfam12833
Helix-turn-helix domain;
210-287 8.49e-20

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 81.48  E-value: 8.49e-20
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 823112817  210 YANALSVSENYLHRCIKETIGEAPKEWINKVSILQSQLLLQDLT-KSISEIAFELNYGDPSYFGRLFKKITGVTPSEYR 287
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEDTgLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYR 79
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
211-287 2.84e-19

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 80.29  E-value: 2.84e-19
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 823112817   211 ANALSVSENYLHRCIKETIGEAPKEWINKVSILQSQLLLQDLTKSISEIAFELNYGDPSYFGRLFKKITGVTPSEYR 287
Cdd:smart00342   8 AEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPSEYR 84
PRK10296 PRK10296
DNA-binding transcriptional regulator ChbR; Provisional
 204-290 4.36e-08

DNA-binding transcriptional regulator ChbR; Provisional


Pssm-ID: 182362 [Multi-domain]  Cd Length: 278  Bit Score: 53.22  E-value: 4.36e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 823112817 204 HKSVLFYANAL-------SVSENYLHRCIKETIGEAPKEWINKVSILQSQLLLQDLTKSISEIAFELNYGDPSYFGRLFK 276
Cdd:PRK10296 181 HDKEQFSESALenmvrlsGKSQEYLTRATRRYYGKTPMQIINEIRINFAKKQLEMTNYSVTDIAFEAGYSSPSLFIKTFK 260

                         90
                 ....*....|....
gi 823112817 277 KITGVTPSEYRTAF 290
Cdd:PRK10296 261 KLTSFTPGSYRKKL 274
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
50-287 1.97e-04

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 42.35  E-value: 1.97e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 823112817  50 HRPEFNFIVHITKGNAKQQVDANLVPIKEDEILFVRQGNVTSLVEVSpDAAGHMILFEDQTLNQLLSKQELIKLFSAnvV 129
Cdd:PRK13502  34 HTHEFCELVMVWRGNGLHVLNERPYRITRGDLFYIRAEDKHSYTSVN-DLVLQNIIYCPERLKLNVNWQAMIPGFQG--A 110

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 823112817 130 IHLP--KESSIWLNSLFELVTT---EIYQQDPNLGICYSLFQAGLQKIFTSAKELNKNMNRSAEITFNFKEL-VYKNYLE 203
Cdd:PRK13502 111 QWHPhwRLGSMGMNQARQVINQlehESNGRDPLANEMAELLFGQLVMTLKRHRYATDDLPATSRETLLDKLItALANSLE 190

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 823112817 204 HKSVL-FYANALSVSENYLHRCIKETIGEAPKEWINKVSILQSQLLLQDLTKSISEIAFELNYGDPSYFGRLFKKITGVT 282
Cdd:PRK13502 191 CPFALdAFCQQEQCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQCGFEDSNYFSVVFTRETGMT 270


                 ....*
gi 823112817 283 PSEYR 287
Cdd:PRK13502 271 PSQWR 275
 
Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
202-293 5.81e-21

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 89.84  E-value: 5.81e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 823112817 202 LEHKSVLFYANALSVSENYLHRCIKETIGEAPKEWINKVSILQSQLLLQDLTKSISEIAFELNYGDPSYFGRLFKKITGV 281
Cdd:COG2207  166 LLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGV 245

                         90
                 ....*....|..
gi 823112817 282 TPSEYRTAFMQD 293
Cdd:COG2207  246 TPSEYRKRLRAR 257
HTH_18 pfam12833
Helix-turn-helix domain;
210-287 8.49e-20

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 81.48  E-value: 8.49e-20
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 823112817  210 YANALSVSENYLHRCIKETIGEAPKEWINKVSILQSQLLLQDLT-KSISEIAFELNYGDPSYFGRLFKKITGVTPSEYR 287
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEDTgLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYR 79
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
211-287 2.84e-19

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 80.29  E-value: 2.84e-19
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 823112817   211 ANALSVSENYLHRCIKETIGEAPKEWINKVSILQSQLLLQDLTKSISEIAFELNYGDPSYFGRLFKKITGVTPSEYR 287
Cdd:smart00342   8 AEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPSEYR 84
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 211-290 9.65e-10

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: 58.25  E-value: 9.65e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 823112817 211 ANALSVSENYLHRCIKETIGEAPKEWINKVSILQSQLLLQDLTKSISEIAFELNYGDPSYFGRLFKKITGVTPSEYRTAF 290
Cdd:COG4977  233 ARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSASHFRRAFRRRFGVSPSAYRRRF 312
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 200-287 8.20e-09

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: 55.83  E-value: 8.20e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 823112817 200 NYLEHKSVLFYANALSVSENYLHRCIKETIGEAPKEWINKVSILQSQLLLQDlTKSISEIAFELNYGDPSYFGRLFKKIT 279
Cdd:COG2169   96 GAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLLQT-GLSVTDAAYAAGFGSLSRFYEAFKKLL 174


                 ....*...
gi 823112817 280 GVTPSEYR 287
Cdd:COG2169  175 GMTPSAYR 182
PRK10296 PRK10296
DNA-binding transcriptional regulator ChbR; Provisional
 204-290 4.36e-08

DNA-binding transcriptional regulator ChbR; Provisional


Pssm-ID: 182362 [Multi-domain]  Cd Length: 278  Bit Score: 53.22  E-value: 4.36e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 823112817 204 HKSVLFYANAL-------SVSENYLHRCIKETIGEAPKEWINKVSILQSQLLLQDLTKSISEIAFELNYGDPSYFGRLFK 276
Cdd:PRK10296 181 HDKEQFSESALenmvrlsGKSQEYLTRATRRYYGKTPMQIINEIRINFAKKQLEMTNYSVTDIAFEAGYSSPSLFIKTFK 260

                         90
                 ....*....|....
gi 823112817 277 KITGVTPSEYRTAF 290
Cdd:PRK10296 261 KLTSFTPGSYRKKL 274
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 255-288 1.15e-07

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: 47.15  E-value: 1.15e-07
                          10        20        30
                  ....*....|....*....|....*....|....
gi 823112817  255 SISEIAFELNYgDPSYFGRLFKKITGVTPSEYRT 288
Cdd:pfam00165  10 TIADIADELGF-SRSYFSRLFKKYTGVTPSQYRH 42
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
255-288 1.97e-07

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 51.51  E-value: 1.97e-07
                         10        20        30
                 ....*....|....*....|....*....|....
gi 823112817 255 SISEIAFELNYGDPSYFGRLFKKITGVTPSEYRT 288
Cdd:PRK10572 250 PIATIGRNVGYDDQLYFSRVFKKCTGASPSEFRA 283
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 255-287 1.04e-05

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 46.18  E-value: 1.04e-05
                         10        20        30
                 ....*....|....*....|....*....|...
gi 823112817 255 SISEIAFELNYGDPSYFGRLFKKITGVTPSEYR 287
Cdd:PRK09685 266 KITSIAYKWGFSDSSHFSTAFKQRFGVSPGEYR 298
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
211-287 2.33e-05

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 45.05  E-value: 2.33e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 823112817 211 ANALSVSENYLHRCIKETIGEAPKEWINKVSILQSQLLLQDLTKSISEIAFELNYGDPSYFGRLFKKITGVTPSEYR 287
Cdd:PRK13503 194 ADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDSNHFSTLFRREFSWSPRDIR 270
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
216-292 1.72e-04

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 42.58  E-value: 1.72e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 823112817 216 VSENYLHRCIKETIGEAPKEWINKVSILQSQLLLQDLTKSISEIAFELNYGDPSYFGRLFKKITGVTPSEYRTAFMQ 292
Cdd:PRK13501 204 LVERSLKQLFRQQTGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFSAVFTREAGMTPRDYRQRFIR 280
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
50-287 1.97e-04

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 42.35  E-value: 1.97e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 823112817  50 HRPEFNFIVHITKGNAKQQVDANLVPIKEDEILFVRQGNVTSLVEVSpDAAGHMILFEDQTLNQLLSKQELIKLFSAnvV 129
Cdd:PRK13502  34 HTHEFCELVMVWRGNGLHVLNERPYRITRGDLFYIRAEDKHSYTSVN-DLVLQNIIYCPERLKLNVNWQAMIPGFQG--A 110

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 823112817 130 IHLP--KESSIWLNSLFELVTT---EIYQQDPNLGICYSLFQAGLQKIFTSAKELNKNMNRSAEITFNFKEL-VYKNYLE 203
Cdd:PRK13502 111 QWHPhwRLGSMGMNQARQVINQlehESNGRDPLANEMAELLFGQLVMTLKRHRYATDDLPATSRETLLDKLItALANSLE 190

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 823112817 204 HKSVL-FYANALSVSENYLHRCIKETIGEAPKEWINKVSILQSQLLLQDLTKSISEIAFELNYGDPSYFGRLFKKITGVT 282
Cdd:PRK13502 191 CPFALdAFCQQEQCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQCGFEDSNYFSVVFTRETGMT 270


                 ....*
gi 823112817 283 PSEYR 287
Cdd:PRK13502 271 PSQWR 275
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 255-289 4.03e-04

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: 41.58  E-value: 4.03e-04
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 823112817 255 SISEIAFELNYgDPSYFGRLFKKITGVTPSEYRTA 289
Cdd:COG2169  102 SLEDLAARLGL-SPRHLRRLFKAHTGVTPKAYARA 135
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
255-288 8.64e-04

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 37.53  E-value: 8.64e-04
                           10        20        30
                   ....*....|....*....|....*....|....
gi 823112817   255 SISEIAFELNYGdPSYFGRLFKKITGVTPSEYRT 288
Cdd:smart00342   3 TLEDLAEALGVS-PRHLQRLFKKETGTTPKQYLR 35
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
210-287 1.21e-03

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 39.70  E-value: 1.21e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 823112817 210 YANALSVSENYLHRCIKETIGEAPKEWINKVSILQSQLLLQDLTKSISEIAFELNYGDPSYFGRLFKKITGVTPSEYR 287
Cdd:PRK13500 228 FCDEASCSERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQHSRLLISDISTECGFEDSNYFSVVFTRETGMTPSQWR 305
ftrA PRK09393
transcriptional activator FtrA; Provisional
 211-290 6.73e-03

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 37.64  E-value: 6.73e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 823112817 211 ANALSVSENYLHRCIKETIGEAPKEWINKVSILQSQLLLQDLTKSISEIAFELNYGDPSYFGRLFKKITGVTPSEYRTAF 290
Cdd:PRK09393 241 AARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLESSALSIDQIAERAGFGSEESLRHHFRRRAATSPAAYRKRF 320
 
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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