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Conserved domains on  [gi|511819214|ref|WP_016400381|]
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AraC family transcriptional regulator [Agarivorans albus]

Protein Classification

AraC family transcriptional regulator( domain architecture ID 12033754)

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
AdaA super family cl34413
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 158-267 5.77e-27

Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), contains Zn-binding and two AraC-type DNA-binding domains [Replication, recombination and repair];


The actual alignment was detected with superfamily member COG2169:

Pssm-ID: 441772 [Multi-domain]  Cd Length: 358  Bit Score: 107.06  E-value: 5.77e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214 158 HPLRADLRCLAKPQLKRVKECISDQLDSQLSLGELAQVAGLSRFHLVRSFKQVYGLSPHAFQLNQRINRAKALLREGSSI 237
Cdd:COG2169   72 RPDLAPGSPPRADLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLLQTGLSV 151

                         90       100       110
                 ....*....|....*....|....*....|
gi 511819214 238 ADTALDLGFADQSHFQRNFKKRLALTPKQY 267
Cdd:COG2169  152 TDAAYAAGFGSLSRFYEAFKKLLGMTPSAY 181
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
21-267 1.25e-22

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


:

Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 93.69  E-value: 1.25e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214  21 RQAEHSEACYHSHSHDEFSFGIIDTGEAIYKNMQRQHHISQGHSVTINPGDVHSCNPKQGAWSYRMLFVETAWVAQLQQE 100
Cdd:COG2207    3 LLILLLLLLLLLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLL 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214 101 MFARSASDYFAFEKHCLSHKQNYRLLESLFNSIKLERNSLEQESLLIAFFEQQFAAKHPLRADLRCLAKPQLKRVKECIS 180
Cdd:COG2207   83 LALLALLLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLL 162

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214 181 DQLDSQLSLGELAQVAGLSRFHLVRSFKQVYGLSPHAFQLNQRINRAKALLREGS-SIADTALDLGFADQSHFQRNFKKR 259
Cdd:COG2207  163 LLLLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDlSISEIAYELGFSSQSHFSRAFKKR 242


                 ....*...
gi 511819214 260 LALTPKQY 267
Cdd:COG2207  243 FGVTPSEY 250
 
Name Accession Description Interval E-value
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 158-267 5.77e-27

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: 107.06  E-value: 5.77e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214 158 HPLRADLRCLAKPQLKRVKECISDQLDSQLSLGELAQVAGLSRFHLVRSFKQVYGLSPHAFQLNQRINRAKALLREGSSI 237
Cdd:COG2169   72 RPDLAPGSPPRADLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLLQTGLSV 151

                         90       100       110
                 ....*....|....*....|....*....|
gi 511819214 238 ADTALDLGFADQSHFQRNFKKRLALTPKQY 267
Cdd:COG2169  152 TDAAYAAGFGSLSRFYEAFKKLLGMTPSAY 181
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
186-267 6.65e-25

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 94.54  E-value: 6.65e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214   186 QLSLGELAQVAGLSRFHLVRSFKQVYGLSPHAFQLNQRINRAKALLREGS-SIADTALDLGFADQSHFQRNFKKRLALTP 264
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDlSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ...
gi 511819214   265 KQY 267
Cdd:smart00342  81 SEY 83
HTH_18 pfam12833
Helix-turn-helix domain;
192-268 8.82e-23

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 89.19  E-value: 8.82e-23
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 511819214  192 LAQVAGLSRFHLVRSFKQVYGLSPHAFQLNQRINRAKALLREGS--SIADTALDLGFADQSHFQRNFKKRLALTPKQYQ 268
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEDTglSVAEIALALGFSDASHFSRAFRRLFGLTPSEYR 79
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
21-267 1.25e-22

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 93.69  E-value: 1.25e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214  21 RQAEHSEACYHSHSHDEFSFGIIDTGEAIYKNMQRQHHISQGHSVTINPGDVHSCNPKQGAWSYRMLFVETAWVAQLQQE 100
Cdd:COG2207    3 LLILLLLLLLLLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLL 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214 101 MFARSASDYFAFEKHCLSHKQNYRLLESLFNSIKLERNSLEQESLLIAFFEQQFAAKHPLRADLRCLAKPQLKRVKECIS 180
Cdd:COG2207   83 LALLALLLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLL 162

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214 181 DQLDSQLSLGELAQVAGLSRFHLVRSFKQVYGLSPHAFQLNQRINRAKALLREGS-SIADTALDLGFADQSHFQRNFKKR 259
Cdd:COG2207  163 LLLLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDlSISEIAYELGFSSQSHFSRAFKKR 242


                 ....*...
gi 511819214 260 LALTPKQY 267
Cdd:COG2207  243 FGVTPSEY 250
PRK15435 PRK15435
bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;
156-268 1.10e-14

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


Pssm-ID: 185333 [Multi-domain]  Cd Length: 353  Bit Score: 72.90  E-value: 1.10e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214 156 AKHPLRADLRCLAKPQ------LKRVKECISDQLDSQ-------------------LSLGELAQVAGLSRFHLVRSFKQV 210
Cdd:PRK15435  44 ARHALRENVRFYANASealaagFRPCKRCQPDKANPQqhrldkithacrlleqetpVTLEALADQVAMSPFHLHRLFKAT 123

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 511819214 211 YGLSPHAFQLNQRINRAKALLREGSSIADTALDLGFADQSHFQRNFKKRLALTPKQYQ 268
Cdd:PRK15435 124 TGMTPKAWQQAWRARRLREALAKGESVTTSILNAGFPDSSSYYRKADETLGMTAKQFR 181
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 170-268 5.02e-14

YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only one protein with the YSIRK variant form of signal peptide (TIGR01168) were examined for conserved genes near that one tagged protein. This protein is found adjacent to at various classes of repetitive or low-complexity YSIRK proteins (whether unique in genome or not), in a range of species (Enterococcus faecalis X98, Ruminococcus torques, Coprobacillus sp. D7, Lysinibacillus fusiformis ZC1, Streptococcus equi subsp. equi 4047, etc). The affliated YSIRK proteins include Streptococcal protective antigen (see ) and proteins with the Rib/alpha/Esp surface antigen repeat (see TIGR02331). The last quarter of this protein has an AraC family helix-turn-helix (HTH)transcriptional regulator domain.


Pssm-ID: 274977 [Multi-domain]  Cd Length: 383  Bit Score: 71.25  E-value: 5.02e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214  170 PQLKRVKECISDQLDSQLSLGELAQVAGLSRFHLVRSFKQVYGLSPHAFQLNQRINRAKALLREGSSIADTALDLGFADQ 249
Cdd:TIGR04094 285 PLIRAVIQYINLNLYDPLKVEEIAKQFFMSESKLRKLFKKEMGISIQEYISKRKIEEAKYLLRSQIPVSEVSNELGFYDL 364

                          90
                  ....*....|....*....
gi 511819214  250 SHFQRNFKKRLALTPKQYQ 268
Cdd:TIGR04094 365 SHFSRTFKKHTGVSPKQYQ 383
AraC_binding pfam02311
AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization ...
 24-150 1.00e-11

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: 60.91  E-value: 1.00e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214   24 EHSEACYHS-----HSHDEFSFGIIDTGEAIYKNMQRQHHISQGHSVTINPGDVHSCNP-KQGAWSYRMLFVETAWVAQL 97
Cdd:pfam02311   5 EGIEARYPGhsfppHVHDFYVIGYIERGVGRFRLNGRTYHLGPGDLFLLPPGEPHDYEPeSEDGWRYRWLYFEPELLERI 84

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 511819214   98 qqemfARSASDYFAFEKHCLSHKQNYRLLESLFNSIKLER--NSLEQESLLIAFF 150
Cdd:pfam02311  85 -----LADISILAGGPLPLLRDPELAALLRALFRLLEEAGrsDDLLAEALLYQLL 134
cupin_YbfI-like_N cd07001
AraC/XylS family transcriptional regulators similar to Bacillus subtilis YbfI, N-terminal ...
 33-84 2.13e-05

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: 41.61  E-value: 2.13e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 511819214  33 HSHDEFSFGIIDTGEAIYKNMQRQHHISQGHSVTINPGDVHSCNpKQGAWSY 84
Cdd:cd07001   18 HFHDFYVIGFIESGQRTLFCEGKEYTVEPGDLLLINPRDVHSCI-QISGRRL 68
 
Name Accession Description Interval E-value
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 158-267 5.77e-27

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: 107.06  E-value: 5.77e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214 158 HPLRADLRCLAKPQLKRVKECISDQLDSQLSLGELAQVAGLSRFHLVRSFKQVYGLSPHAFQLNQRINRAKALLREGSSI 237
Cdd:COG2169   72 RPDLAPGSPPRADLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLLQTGLSV 151

                         90       100       110
                 ....*....|....*....|....*....|
gi 511819214 238 ADTALDLGFADQSHFQRNFKKRLALTPKQY 267
Cdd:COG2169  152 TDAAYAAGFGSLSRFYEAFKKLLGMTPSAY 181
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
186-267 6.65e-25

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 94.54  E-value: 6.65e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214   186 QLSLGELAQVAGLSRFHLVRSFKQVYGLSPHAFQLNQRINRAKALLREGS-SIADTALDLGFADQSHFQRNFKKRLALTP 264
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDlSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ...
gi 511819214   265 KQY 267
Cdd:smart00342  81 SEY 83
HTH_18 pfam12833
Helix-turn-helix domain;
192-268 8.82e-23

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 89.19  E-value: 8.82e-23
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 511819214  192 LAQVAGLSRFHLVRSFKQVYGLSPHAFQLNQRINRAKALLREGS--SIADTALDLGFADQSHFQRNFKKRLALTPKQYQ 268
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEDTglSVAEIALALGFSDASHFSRAFRRLFGLTPSEYR 79
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 170-267 1.08e-22

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


Pssm-ID: 444002 [Multi-domain]  Cd Length: 318  Bit Score: 94.84  E-value: 1.08e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214 170 PQLKRVKECISDQLDSQLSLGELAQVAGLSRFHLVRSFKQVYGLSPHAFQLNQRINRAKALLREGS-SIADTALDLGFAD 248
Cdd:COG4977  210 PRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDlSIEEIAAACGFGS 289

                         90
                 ....*....|....*....
gi 511819214 249 QSHFQRNFKKRLALTPKQY 267
Cdd:COG4977  290 ASHFRRAFRRRFGVSPSAY 308
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
21-267 1.25e-22

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 93.69  E-value: 1.25e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214  21 RQAEHSEACYHSHSHDEFSFGIIDTGEAIYKNMQRQHHISQGHSVTINPGDVHSCNPKQGAWSYRMLFVETAWVAQLQQE 100
Cdd:COG2207    3 LLILLLLLLLLLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLL 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214 101 MFARSASDYFAFEKHCLSHKQNYRLLESLFNSIKLERNSLEQESLLIAFFEQQFAAKHPLRADLRCLAKPQLKRVKECIS 180
Cdd:COG2207   83 LALLALLLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLL 162

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214 181 DQLDSQLSLGELAQVAGLSRFHLVRSFKQVYGLSPHAFQLNQRINRAKALLREGS-SIADTALDLGFADQSHFQRNFKKR 259
Cdd:COG2207  163 LLLLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDlSISEIAYELGFSSQSHFSRAFKKR 242


                 ....*...
gi 511819214 260 LALTPKQY 267
Cdd:COG2207  243 FGVTPSEY 250
PRK15435 PRK15435
bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;
156-268 1.10e-14

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


Pssm-ID: 185333 [Multi-domain]  Cd Length: 353  Bit Score: 72.90  E-value: 1.10e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214 156 AKHPLRADLRCLAKPQ------LKRVKECISDQLDSQ-------------------LSLGELAQVAGLSRFHLVRSFKQV 210
Cdd:PRK15435  44 ARHALRENVRFYANASealaagFRPCKRCQPDKANPQqhrldkithacrlleqetpVTLEALADQVAMSPFHLHRLFKAT 123

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 511819214 211 YGLSPHAFQLNQRINRAKALLREGSSIADTALDLGFADQSHFQRNFKKRLALTPKQYQ 268
Cdd:PRK15435 124 TGMTPKAWQQAWRARRLREALAKGESVTTSILNAGFPDSSSYYRKADETLGMTAKQFR 181
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 170-268 5.02e-14

YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only one protein with the YSIRK variant form of signal peptide (TIGR01168) were examined for conserved genes near that one tagged protein. This protein is found adjacent to at various classes of repetitive or low-complexity YSIRK proteins (whether unique in genome or not), in a range of species (Enterococcus faecalis X98, Ruminococcus torques, Coprobacillus sp. D7, Lysinibacillus fusiformis ZC1, Streptococcus equi subsp. equi 4047, etc). The affliated YSIRK proteins include Streptococcal protective antigen (see ) and proteins with the Rib/alpha/Esp surface antigen repeat (see TIGR02331). The last quarter of this protein has an AraC family helix-turn-helix (HTH)transcriptional regulator domain.


Pssm-ID: 274977 [Multi-domain]  Cd Length: 383  Bit Score: 71.25  E-value: 5.02e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214  170 PQLKRVKECISDQLDSQLSLGELAQVAGLSRFHLVRSFKQVYGLSPHAFQLNQRINRAKALLREGSSIADTALDLGFADQ 249
Cdd:TIGR04094 285 PLIRAVIQYINLNLYDPLKVEEIAKQFFMSESKLRKLFKKEMGISIQEYISKRKIEEAKYLLRSQIPVSEVSNELGFYDL 364

                          90
                  ....*....|....*....
gi 511819214  250 SHFQRNFKKRLALTPKQYQ 268
Cdd:TIGR04094 365 SHFSRTFKKHTGVSPKQYQ 383
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
138-267 1.68e-13

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 68.85  E-value: 1.68e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214 138 NSLEQesLLIAFFEQQFAAKHPLRaDLRCLAKPQLkrvkecISDQLDSQLSLGELAQVAGLSRFHLVRSFKQVYGLSPHA 217
Cdd:PRK10572 160 NLLER--LLLRCMEAIPESLHPPM-DPRVREACQY------ISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLR 230

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 511819214 218 FQLNQRINRAKALLR-EGSSIADTALDLGFADQSHFQRNFKKRLALTPKQY 267
Cdd:PRK10572 231 WREDQRISRAKLLLQtTRMPIATIGRNVGYDDQLYFSRVFKKCTGASPSEF 281
AraC_binding pfam02311
AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization ...
 24-150 1.00e-11

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: 60.91  E-value: 1.00e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214   24 EHSEACYHS-----HSHDEFSFGIIDTGEAIYKNMQRQHHISQGHSVTINPGDVHSCNP-KQGAWSYRMLFVETAWVAQL 97
Cdd:pfam02311   5 EGIEARYPGhsfppHVHDFYVIGYIERGVGRFRLNGRTYHLGPGDLFLLPPGEPHDYEPeSEDGWRYRWLYFEPELLERI 84

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 511819214   98 qqemfARSASDYFAFEKHCLSHKQNYRLLESLFNSIKLER--NSLEQESLLIAFF 150
Cdd:pfam02311  85 -----LADISILAGGPLPLLRDPELAALLRALFRLLEEAGrsDDLLAEALLYQLL 134
ftrA PRK09393
transcriptional activator FtrA; Provisional
 188-267 1.47e-11

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 63.44  E-value: 1.47e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214 188 SLGELAQVAGLSRFHLVRSFKQVYGLSPHAFQLNQRINRAKALLREGS-SIADTALDLGFADQSHFQRNFKKRLALTPKQ 266
Cdd:PRK09393 236 TVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLESSAlSIDQIAERAGFGSEESLRHHFRRRAATSPAA 315


                 .
gi 511819214 267 Y 267
Cdd:PRK09393 316 Y 316
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 171-267 2.84e-11

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 62.36  E-value: 2.84e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214 171 QLKRVKECISDQLDS-QLSLGELAQVAGLSRFHLVRSFKQvYGLSPHAFQLNQRINRAKALLR---EGSSIADTALDLGF 246
Cdd:PRK09685 198 QFQKVVALIDQSIQEeILRPEWIAGELGISVRSLYRLFAE-QGLVVAQYIRNRRLDRCADDLRpaaDDEKITSIAYKWGF 276

                         90       100
                 ....*....|....*....|.
gi 511819214 247 ADQSHFQRNFKKRLALTPKQY 267
Cdd:PRK09685 277 SDSSHFSTAFKQRFGVSPGEY 297
PRK15121 PRK15121
MDR efflux pump AcrAB transcriptional activator RobA;
183-267 1.81e-10

MDR efflux pump AcrAB transcriptional activator RobA;


Pssm-ID: 185076 [Multi-domain]  Cd Length: 289  Bit Score: 60.02  E-value: 1.81e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214 183 LDSQLSLGELAQVAGLSRFHLVRSFKQVYGLSPHAFQLNQRINRAKALLREGSS-IADTALDLGFADQSHFQRNFKKRLA 261
Cdd:PRK15121  18 LDQPLSLDNVAAKAGYSKWHLQRMFKDVTGHAIGAYIRARRLSKAAVALRLTSRpILDIALQYRFDSQQTFTRAFKKQFA 97


                 ....*.
gi 511819214 262 LTPKQY 267
Cdd:PRK15121  98 QTPALY 103
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
177-268 4.21e-08

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 50.31  E-value: 4.21e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214 177 ECISDQLDSQLSLGELAQVAGLSRFHLVRSFKQVYGLSPHAFQLNQRINRAKALLREGSS-IADTALDLGFADQSHFQRN 255
Cdd:PRK10219  12 AWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERpIFDIAMDLGYVSQQTFSRV 91

                         90
                 ....*....|...
gi 511819214 256 FKKRLALTPKQYQ 268
Cdd:PRK10219  92 FRRQFDRTPSDYR 104
PRK10371 PRK10371
transcriptional regulator MelR;
179-268 1.27e-07

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 51.74  E-value: 1.27e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214 179 ISDQLDSQLSLGELAQVAGLSRFHLVRSFKQVYGLSPHAFQLNQRINRAKALLREGS-SIADTALDLGFADQSHFQRNFK 257
Cdd:PRK10371 200 IAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLSDTDkSILDIALTAGFRSSSRFYSTFG 279

                         90
                 ....*....|.
gi 511819214 258 KRLALTPKQYQ 268
Cdd:PRK10371 280 KYVGMSPQQYR 290
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 179-218 1.02e-06

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: 44.45  E-value: 1.02e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 511819214  179 ISDQLDSQLSLGELAQVAGLSRFHLVRSFKQVYGLSPHAF 218
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYTGVTPSQY 40
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
179-268 4.33e-06

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 45.09  E-value: 4.33e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214 179 ISDQLDSQLSLGELAQVAGLSRFHLVRSFKQVYGLSPHAFQLNQRINRAKALLREGSS-IADTALDLGFADQSHFQRNFK 257
Cdd:PRK11511  18 IEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEpILYLAERYGFESQQTLTRTFK 97

                         90
                 ....*....|.
gi 511819214 258 KRLALTPKQYQ 268
Cdd:PRK11511  98 NYFDVPPHKYR 108
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
134-272 1.35e-05

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 45.67  E-value: 1.35e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214 134 KLERNSLEQESLLIAFFEQQFAA------KHPLRADlRCLAKP---QLKRVKECISDQLDSQLSLGELAQVAGLSRFHLV 204
Cdd:PRK13501 132 QLAQESRKTDSWSIQLTEVLLLQlaivlkRHRYRAE-QAHLLPdgeQLDLIMSALQQSLGAYFDMADFCHKNQLVERSLK 210

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 511819214 205 RSFKQVYGLSPHAFQLNQRINRAKALLREGSS-IADTALDLGFADQSHFQRNFKKRLALTPKQYQGFFV 272
Cdd:PRK13501 211 QLFRQQTGMSISHYLRQIRLCHAKCLLRGSEHrISDIAARCGFEDSNYFSAVFTREAGMTPRDYRQRFI 279
cupin_YbfI-like_N cd07001
AraC/XylS family transcriptional regulators similar to Bacillus subtilis YbfI, N-terminal ...
 33-84 2.13e-05

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: 41.61  E-value: 2.13e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 511819214  33 HSHDEFSFGIIDTGEAIYKNMQRQHHISQGHSVTINPGDVHSCNpKQGAWSY 84
Cdd:cd07001   18 HFHDFYVIGFIESGQRTLFCEGKEYTVEPGDLLLINPRDVHSCI-QISGRRL 68
PRK10296 PRK10296
DNA-binding transcriptional regulator ChbR; Provisional
 188-268 6.75e-05

DNA-binding transcriptional regulator ChbR; Provisional


Pssm-ID: 182362 [Multi-domain]  Cd Length: 278  Bit Score: 43.21  E-value: 6.75e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214 188 SLGELAQVAGLSRFHLVRSFKQVYGLSPHAFQLNQRINRAKALLREGS-SIADTALDLGFADQSHFQRNFKKRLALTPKQ 266
Cdd:PRK10296 190 ALENMVRLSGKSQEYLTRATRRYYGKTPMQIINEIRINFAKKQLEMTNySVTDIAFEAGYSSPSLFIKTFKKLTSFTPGS 269


                 ..
gi 511819214 267 YQ 268
Cdd:PRK10296 270 YR 271
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
191-265 1.49e-04

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 42.36  E-value: 1.49e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 511819214 191 ELAQVAGLSRFHLVRSFKQVYGLSPHAFqLNQ-RINRAKALLREGS-SIADTALDLGFADQSHFQRNFKKRLALTPK 265
Cdd:PRK13503 192 ALADQFSLSLRTLHRQLKQQTGLTPQRY-LNRlRLLKARHLLRHSDaSVTDIAYRCGFGDSNHFSTLFRREFSWSPR 267
QdoI COG1917
Cupin domain protein related to quercetin dioxygenase [General function prediction only];
6-74 4.16e-04

Cupin domain protein related to quercetin dioxygenase [General function prediction only];


Pssm-ID: 441521 [Multi-domain]  Cd Length: 99  Bit Score: 38.68  E-value: 4.16e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 511819214   6 KHLLKRSAQLPFVELRQAEHSEACYHSHSHDEFsfGIIDTGEAIYKNMQRQHHISQGHSVTINPGDVHS 74
Cdd:COG1917   14 RVLADGEDELEVVRVTFEPGARTPWHSHPGEEL--IYVLEGEGEVEVGGEEYELKPGDVVFIPPGVPHA 80
PRK15186 PRK15186
AraC family transcriptional regulator; Provisional
 124-271 4.42e-04

AraC family transcriptional regulator; Provisional


Pssm-ID: 185108 [Multi-domain]  Cd Length: 291  Bit Score: 40.82  E-value: 4.42e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214 124 RLLESLFNSIKLERNSLEQESLLIAFFEQQFAAKHPLRADLRCLAKPQL-KRVKECISDQLDSQLSLGELAQVAGLSRFH 202
Cdd:PRK15186 134 RVFNLLHSSNKSQKLSQDKKEYLIRFLLSEFIYEPEAFALFRELSQNTLaENIYNIIISDISRKWALKDISDSLYMSCST 213

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214 203 LVRSFKQVYGLSPHAFqLNQRINRAKALLREGS-SIADTALDLGFADQSHFQRNFKKRLALTPKQYQGFF 271
Cdd:PRK15186 214 LKRKLKQENTSFSEVY-LNARMNKATKLLRNSEyNITRVAYMCGYDSASYFTCVFKKHFKTTPSEFLAFL 282
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 213-268 4.83e-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: 40.81  E-value: 4.83e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214 213 LSPHAFQLNQRINRAKALLREGS----SIADTALDLGFaDQSHFQRNFKKRLALTPKQYQ 268
Cdd:COG2169   75 LAPGSPPRADLVARACRLIEAGAedrpSLEDLAARLGL-SPRHLRRLFKAHTGVTPKAYA 133
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 233-267 1.20e-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: 35.98  E-value: 1.20e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 511819214  233 EGSSIADTALDLGFaDQSHFQRNFKKRLALTPKQY 267
Cdd:pfam00165   7 TNLTIADIADELGF-SRSYFSRLFKKYTGVTPSQY 40
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
 168-267 5.25e-03

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 37.67  E-value: 5.25e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 511819214 168 AKPQLK-RVKECISDQLDSQLSLGELAQVAGLSRFHLVRSFKQvYGLSPHAFQLNQRINRAKALLREGS-SIADTALDLG 245
Cdd:PRK15185 203 AQITLKeRVYNIISSSPSRQWKLTDVADHIFMSTSTLKRKLAE-EGTSFSDIYLSARMNQAAKLLRIGNhNVNAVALKCG 281

                         90       100
                 ....*....|....*....|..
gi 511819214 246 FADQSHFQRNFKKRLALTPKQY 267
Cdd:PRK15185 282 YDSTSYFIQCFKKYFKTTPSTF 303
 
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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