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Conserved domains on  [gi|556293102|ref|WP_023291733|]
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MULTISPECIES: AraC family transcriptional regulator [Klebsiella]

Protein Classification

AraC family transcriptional regulator( domain architecture ID 13673967)

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
GlxA super family cl34854
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 155-274 9.84e-25

Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH domain [Transcription];


The actual alignment was detected with superfamily member COG4977:

Pssm-ID: 444002 [Multi-domain]  Cd Length: 318  Bit Score: 100.62  E-value: 9.84e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556293102 155 FRPLAHHASAQGEtghRFDRVRDYLHDNYMRPITLDELAQVAALSPYHFQRQFKAHYHVTPHQMLMAIRLWRAKAFLTHG 234
Cdd:COG4977  198 FSPLLVPLGHRDP---RLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETT 274

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 556293102 235 -MPAAEVAIAVGLTDQSHLTRAFTQRYGITPVRYQKQVARR 274
Cdd:COG4977  275 dLSIEEIAAACGFGSASHFRRAFRRRFGVSPSAYRRRFRAR 315
AraC_binding pfam02311
AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization ...
 23-137 1.96e-22

AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization domain of the bacterial gene regulatory protein AraC. The domain is found in conjunction with the helix-turn-helix (HTH) DNA-binding motif pfam00165. This domain is distantly related to the Cupin domain pfam00190.


:

Pssm-ID: 396749 [Multi-domain]  Cd Length: 134  Bit Score: 89.80  E-value: 1.96e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556293102   23 LPGVELYHAHISRYAFEPHTHEAFGIGVIEQGAERFRYRGSQHIAAANAIVTMNPDELHTGEAETADGWRYRMIYLEPDR 102
Cdd:pfam02311   1 NPGLEGIEARYPGHSFPPHVHDFYVIGYIERGVGRFRLNGRTYHLGPGDLFLLPPGEPHDYEPESEDGWRYRWLYFEPEL 80

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 556293102  103 LEAITgvRDWWFSEVVREDPLRSRRIGQLIYGLWH 137
Cdd:pfam02311  81 LERIL--ADISILAGGPLPLLRDPELAALLRALFR 113
 
Name Accession Description Interval E-value
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 155-274 9.84e-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: 100.62  E-value: 9.84e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556293102 155 FRPLAHHASAQGEtghRFDRVRDYLHDNYMRPITLDELAQVAALSPYHFQRQFKAHYHVTPHQMLMAIRLWRAKAFLTHG 234
Cdd:COG4977  198 FSPLLVPLGHRDP---RLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETT 274

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 556293102 235 -MPAAEVAIAVGLTDQSHLTRAFTQRYGITPVRYQKQVARR 274
Cdd:COG4977  275 dLSIEEIAAACGFGSASHFRRAFRRRFGVSPSAYRRRFRAR 315
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
186-267 1.29e-22

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 88.76  E-value: 1.29e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556293102   186 PITLDELAQVAALSPYHFQRQFKAHYHVTPHQMLMAIRLWRAKAFLTHG-MPAAEVAIAVGLTDQSHLTRAFTQRYGITP 264
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTdLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ...
gi 556293102   265 VRY 267
Cdd:smart00342  81 SEY 83
AraC_binding pfam02311
AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization ...
 23-137 1.96e-22

AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization domain of the bacterial gene regulatory protein AraC. The domain is found in conjunction with the helix-turn-helix (HTH) DNA-binding motif pfam00165. This domain is distantly related to the Cupin domain pfam00190.


Pssm-ID: 396749 [Multi-domain]  Cd Length: 134  Bit Score: 89.80  E-value: 1.96e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556293102   23 LPGVELYHAHISRYAFEPHTHEAFGIGVIEQGAERFRYRGSQHIAAANAIVTMNPDELHTGEAETADGWRYRMIYLEPDR 102
Cdd:pfam02311   1 NPGLEGIEARYPGHSFPPHVHDFYVIGYIERGVGRFRLNGRTYHLGPGDLFLLPPGEPHDYEPESEDGWRYRWLYFEPEL 80

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 556293102  103 LEAITgvRDWWFSEVVREDPLRSRRIGQLIYGLWH 137
Cdd:pfam02311  81 LERIL--ADISILAGGPLPLLRDPELAALLRALFR 113
HTH_18 pfam12833
Helix-turn-helix domain;
192-270 2.43e-20

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 82.64  E-value: 2.43e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556293102  192 LAQVAALSPYHFQRQFKAHYHVTPHQMLMAIRLWRAKAFLTH--GMPAAEVAIAVGLTDQSHLTRAFTQRYGITPVRYQK 269
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEdtGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 556293102  270 Q 270
Cdd:pfam12833  81 R 81
ftrA PRK09393
transcriptional activator FtrA; Provisional
 156-273 1.17e-13

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 69.61  E-value: 1.17e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556293102 156 RPLAHHASAqgetghRFDRVRDYLHDNYMRPITLDELAQVAALSPYHFQRQFKAHYHVTPHQMLMAIRLWRAKAFL-THG 234
Cdd:PRK09393 210 RPVASRESD------RLGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLeSSA 283

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 556293102 235 MPAAEVAIAVGLTDQSHLTRAFTQRYGITPVRYQKQVAR 273
Cdd:PRK09393 284 LSIDQIAERAGFGSEESLRHHFRRRAATSPAAYRKRFGR 322
cupin_YbfI-like_N cd07001
AraC/XylS family transcriptional regulators similar to Bacillus subtilis YbfI, N-terminal ...
 26-98 1.73e-03

AraC/XylS family transcriptional regulators similar to Bacillus subtilis YbfI, N-terminal cupin domain; This family contains 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, including YbfI, an uncharacterized Bacillus subtilis. In Pseudomonas putida, this protein is thought to regulate the expression of phenylserine aldolase. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380405 [Multi-domain]  Cd Length: 76  Bit Score: 36.60  E-value: 1.73e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 556293102  26 VELYH-AHISRYAFEPHTHEAFGIGVIEQGAERFRYRGSQHIAAANAIVTMNPDELHTGEAETADGWRYRMIYL 98
Cdd:cd07001    2 YEAYHfKGIMQKSFPNHFHDFYVIGFIESGQRTLFCEGKEYTVEPGDLLLINPRDVHSCIQISGRRLDYERINI 75
 
Name Accession Description Interval E-value
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 155-274 9.84e-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: 100.62  E-value: 9.84e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556293102 155 FRPLAHHASAQGEtghRFDRVRDYLHDNYMRPITLDELAQVAALSPYHFQRQFKAHYHVTPHQMLMAIRLWRAKAFLTHG 234
Cdd:COG4977  198 FSPLLVPLGHRDP---RLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETT 274

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 556293102 235 -MPAAEVAIAVGLTDQSHLTRAFTQRYGITPVRYQKQVARR 274
Cdd:COG4977  275 dLSIEEIAAACGFGSASHFRRAFRRRFGVSPSAYRRRFRAR 315
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
186-267 1.29e-22

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 88.76  E-value: 1.29e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556293102   186 PITLDELAQVAALSPYHFQRQFKAHYHVTPHQMLMAIRLWRAKAFLTHG-MPAAEVAIAVGLTDQSHLTRAFTQRYGITP 264
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTdLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ...
gi 556293102   265 VRY 267
Cdd:smart00342  81 SEY 83
AraC_binding pfam02311
AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization ...
 23-137 1.96e-22

AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization domain of the bacterial gene regulatory protein AraC. The domain is found in conjunction with the helix-turn-helix (HTH) DNA-binding motif pfam00165. This domain is distantly related to the Cupin domain pfam00190.


Pssm-ID: 396749 [Multi-domain]  Cd Length: 134  Bit Score: 89.80  E-value: 1.96e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556293102   23 LPGVELYHAHISRYAFEPHTHEAFGIGVIEQGAERFRYRGSQHIAAANAIVTMNPDELHTGEAETADGWRYRMIYLEPDR 102
Cdd:pfam02311   1 NPGLEGIEARYPGHSFPPHVHDFYVIGYIERGVGRFRLNGRTYHLGPGDLFLLPPGEPHDYEPESEDGWRYRWLYFEPEL 80

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 556293102  103 LEAITgvRDWWFSEVVREDPLRSRRIGQLIYGLWH 137
Cdd:pfam02311  81 LERIL--ADISILAGGPLPLLRDPELAALLRALFR 113
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 156-274 1.35e-20

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: 89.73  E-value: 1.35e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556293102 156 RPLAhhASAQGETGHRFDRVRDYLHDNYMRPITLDELAQVAALSPYHFQRQFKAHYHVTPHQMLMAIRLWRAKAFLTHGM 235
Cdd:COG2169   72 RPDL--APGSPPRADLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLLQTGL 149

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 556293102 236 PAAEVAIAVGLTDQSHLTRAFTQRYGITPVRYQKQVARR 274
Cdd:COG2169  150 SVTDAAYAAGFGSLSRFYEAFKKLLGMTPSAYRRGGAGA 188
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
16-274 1.60e-20

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 87.91  E-value: 1.60e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556293102  16 RFRHLEQLPGVELYHAHISRYAFEPHTHEAFGIGVIEQGAERFRYRGSQHIAAANAIVTMNPDELHTGEAETADGWRYRM 95
Cdd:COG2207    2 RLLILLLLLLLLLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLL 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556293102  96 IYLEPDRLEAITGVRDWWFSEVVREDPLRSRRIGQLIYGLWHSDDALAQQGMLLDLIDTFRPLAHHASAQGETGHRFDRV 175
Cdd:COG2207   82 LLALLALLLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLL 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556293102 176 RDYLhdnyMRPITLDELAQVAALSPYHFQRQFKAHYHVTPHQMLMAIRLWRAKAFLTHG-MPAAEVAIAVGLTDQSHLTR 254
Cdd:COG2207  162 LLLL----LLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETdLSISEIAYELGFSSQSHFSR 237

                        250       260
                 ....*....|....*....|
gi 556293102 255 AFTQRYGITPVRYQKQVARR 274
Cdd:COG2207  238 AFKKRFGVTPSEYRKRLRAR 257
HTH_18 pfam12833
Helix-turn-helix domain;
192-270 2.43e-20

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 82.64  E-value: 2.43e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556293102  192 LAQVAALSPYHFQRQFKAHYHVTPHQMLMAIRLWRAKAFLTH--GMPAAEVAIAVGLTDQSHLTRAFTQRYGITPVRYQK 269
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEdtGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 556293102  270 Q 270
Cdd:pfam12833  81 R 81
ftrA PRK09393
transcriptional activator FtrA; Provisional
 156-273 1.17e-13

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 69.61  E-value: 1.17e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556293102 156 RPLAHHASAqgetghRFDRVRDYLHDNYMRPITLDELAQVAALSPYHFQRQFKAHYHVTPHQMLMAIRLWRAKAFL-THG 234
Cdd:PRK09393 210 RPVASRESD------RLGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLeSSA 283

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 556293102 235 MPAAEVAIAVGLTDQSHLTRAFTQRYGITPVRYQKQVAR 273
Cdd:PRK09393 284 LSIDQIAERAGFGSEESLRHHFRRRAATSPAAYRKRFGR 322
PRK15435 PRK15435
bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;
155-269 1.48e-12

bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;


Pssm-ID: 185333 [Multi-domain]  Cd Length: 353  Bit Score: 66.74  E-value: 1.48e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556293102 155 FRPLAHHASAQG-------------ETGHRFDRV----RDYLHDNymrPITLDELAQVAALSPYHFQRQFKAHYHVTPHQ 217
Cdd:PRK15435  54 FYANASEALAAGfrpckrcqpdkanPQQHRLDKIthacRLLEQET---PVTLEALADQVAMSPFHLHRLFKATTGMTPKA 130

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 556293102 218 MLMAIRLWRAKAFLTHGMPAAEVAIAVGLTDQSHLTRAFTQRYGITPVRYQK 269
Cdd:PRK15435 131 WQQAWRARRLREALAKGESVTTSILNAGFPDSSSYYRKADETLGMTAKQFRH 182
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 179-219 3.42e-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: 45.99  E-value: 3.42e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 556293102  179 LHDNYMRPITLDELAQVAALSPYHFQRQFKAHYHVTPHQML 219
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYTGVTPSQYR 41
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
37-264 6.42e-06

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 46.59  E-value: 6.42e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556293102  37 AFEPHTHEAFGIGVIEQGAERFRYRGSQHIAAANAIVTMNPDELHTGEaETADGWRYRMIYLEPDRLEAITGVRDWWFSE 116
Cdd:PRK13503  27 AFPEHHHDFHEIVIVEHGTGIHVFNGQPYTLSGGTVCFVRDHDRHLYE-HTDNLCLTNVLYRSPDAFRFLAGLNQLLPQE 105

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556293102 117 VVREDPLRSR-------RIGQLIYGLWHSDD-----ALAQQGML-LDLIDTFRPLAHHASAQGETGhRFDRVRDYLHDNY 183
Cdd:PRK13503 106 QDGQYPSHWRvnqsvlqQVRQLVAQMEQQEEsndleAIASREILfMQLLVLLRKSSLQENGENSDA-RLNQLLAWLEDHF 184

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556293102 184 MRPITLDELAQVAALSPYHFQRQFKAHYHVTPHQMLMAIRLWRAKAFLTHG-MPAAEVAIAVGLTDQSHLTRAFTQRYGI 262
Cdd:PRK13503 185 AEEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSdASVTDIAYRCGFGDSNHFSTLFRREFSW 264


                 ..
gi 556293102 263 TP 264
Cdd:PRK13503 265 SP 266
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
172-268 8.08e-06

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 46.20  E-value: 8.08e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556293102 172 FDRVRDYLHDNYMRPITLDELAQVAALSPYHFQRQFKAHYHVTPHQMLMAIRLWRAKAFLTHG-MPAAEVAIAVGLTDQS 250
Cdd:PRK13502 178 LDKLITALANSLECPFALDAFCQQEQCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSpLMISEISMQCGFEDSN 257

                         90
                 ....*....|....*...
gi 556293102 251 HLTRAFTQRYGITPVRYQ 268
Cdd:PRK13502 258 YFSVVFTRETGMTPSQWR 275
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
174-270 1.00e-05

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 46.12  E-value: 1.00e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556293102 174 RVRD---YLHDNYMRPITLDELAQVAALSPYHFQRQFKahyhvtpHQMLMAIRLWR-------AKAFL-THGMPAAEVAI 242
Cdd:PRK10572 184 RVREacqYISDHLASEFDIESVAQHVCLSPSRLAHLFR-------QQLGISVLRWRedqrisrAKLLLqTTRMPIATIGR 256

                         90       100
                 ....*....|....*....|....*...
gi 556293102 243 AVGLTDQSHLTRAFTQRYGITPVRYQKQ 270
Cdd:PRK10572 257 NVGYDDQLYFSRVFKKCTGASPSEFRAR 284
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
175-268 5.35e-05

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 42.01  E-value: 5.35e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556293102 175 VRDYLHDNYMRPITLDELAQVAALSPYHFQRQFKAHyhvTPHQMLMAIRLWR----AKAFLTHGMPAAEVAIAVGLTDQS 250
Cdd:PRK11511  14 ILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKE---TGHSLGQYIRSRKmteiAQKLKESNEPILYLAERYGFESQQ 90

                         90
                 ....*....|....*...
gi 556293102 251 HLTRAFTQRYGITPVRYQ 268
Cdd:PRK11511  91 TLTRTFKNYFDVPPHKYR 108
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 174-273 3.75e-04

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 41.06  E-value: 3.75e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556293102 174 RVRDYLHDNYMRPITLDELAQVAALSPYHFQRQFKAHyHVTPHQMLMAIRLWRA-KAFLTHGMPAAEVAIAVGLTDQSHL 252
Cdd:PRK09978 146 RVCTVINNNIAHEWTLARIASELLMSPSLLKKKLREE-ETSYSQLLTECRMQRAlQLIVIHGFSIKRVAVSCGYHSVSYF 224

                         90       100
                 ....*....|....*....|.
gi 556293102 253 TRAFTQRYGITPVRYQKQVAR 273
Cdd:PRK09978 225 IYVFRNYYGMTPTEYQERSAQ 245
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
172-268 4.61e-04

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 40.86  E-value: 4.61e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556293102 172 FDRVRDYLHDNYMRPITLDELAQVAALSPYHFQRQFKAHYHVTPHQMLMAIRLWRAKAFLTHG-MPAAEVAIAVGLTDQS 250
Cdd:PRK13500 208 LDKLITRLAASLKSPFALDKFCDEASCSERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQHSrLLISDISTECGFEDSN 287

                         90
                 ....*....|....*...
gi 556293102 251 HLTRAFTQRYGITPVRYQ 268
Cdd:PRK13500 288 YFSVVFTRETGMTPSQWR 305
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 231-269 6.42e-04

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: 36.75  E-value: 6.42e-04
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 556293102  231 LTHGMPAAEVAIAVGLtDQSHLTRAFTQRYGITPVRYQK 269
Cdd:pfam00165   5 LSTNLTIADIADELGF-SRSYFSRLFKKYTGVTPSQYRH 42
cupin_YbfI-like_N cd07001
AraC/XylS family transcriptional regulators similar to Bacillus subtilis YbfI, N-terminal ...
 26-98 1.73e-03

AraC/XylS family transcriptional regulators similar to Bacillus subtilis YbfI, N-terminal cupin domain; This family contains 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, including YbfI, an uncharacterized Bacillus subtilis. In Pseudomonas putida, this protein is thought to regulate the expression of phenylserine aldolase. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380405 [Multi-domain]  Cd Length: 76  Bit Score: 36.60  E-value: 1.73e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 556293102  26 VELYH-AHISRYAFEPHTHEAFGIGVIEQGAERFRYRGSQHIAAANAIVTMNPDELHTGEAETADGWRYRMIYL 98
Cdd:cd07001    2 YEAYHfKGIMQKSFPNHFHDFYVIGFIESGQRTLFCEGKEYTVEPGDLLLINPRDVHSCIQISGRRLDYERINI 75
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
159-274 2.25e-03

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 38.73  E-value: 2.25e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556293102 159 AHHASAQGEtGHRFDRVRDYLHDNYMRPITLDELAQVAALSPYHFQRQFKAHYHVTPHQMLMAIRLWRAKAFL-THGMPA 237
Cdd:PRK13501 166 AEQAHLLPD-GEQLDLIMSALQQSLGAYFDMADFCHKNQLVERSLKQLFRQQTGMSISHYLRQIRLCHAKCLLrGSEHRI 244

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 556293102 238 AEVAIAVGLTDQSHLTRAFTQRYGITPVRYQKQVARR 274
Cdd:PRK13501 245 SDIAARCGFEDSNYFSAVFTREAGMTPRDYRQRFIRS 281
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 238-270 2.33e-03

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 38.86  E-value: 2.33e-03
                         10        20        30
                 ....*....|....*....|....*....|...
gi 556293102 238 AEVAIAVGLTDQSHLTRAFTQRYGITPVRYQKQ 270
Cdd:PRK09685 268 TSIAYKWGFSDSSHFSTAFKQRFGVSPGEYRRK 300
 
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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