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Conserved domains on  [gi|489738217|ref|WP_003642312|]
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MULTISPECIES: AraC family transcriptional regulator [Lactiplantibacillus]

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
adjacent_YSIRK super family cl37387
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 150-246 2.56e-17

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.


The actual alignment was detected with superfamily member TIGR04094:

Pssm-ID: 274977 [Multi-domain]  Cd Length: 383  Bit Score: 80.11  E-value: 2.56e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489738217  150 VMYYTNAHLHDQLSVKKVLAHVNARcnpES-VRRSFSQEMHMSIRDYINAKKIQEAEhMLLATDLTIRAIAAELCFYDAA 228
Cdd:TIGR04094 290 VIQYINLNLYDPLKVEEIAKQFFMS---ESkLRKLFKKEMGISIQEYISKRKIEEAK-YLLRSQIPVSEVSNELGFYDLS 365

                          90
                  ....*....|....*...
gi 489738217  229 DFSKRFKKETGQTPLEFR 246
Cdd:TIGR04094 366 HFSRTFKKHTGVSPKQYQ 383
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
1-251 7.54e-17

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


:

Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 77.51  E-value: 7.54e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489738217   1 MGTELQFVQYLHQMRDYNDQHPTTKGLILLGYLERDFIRFYRAGKIEEGIQFAKKNLTRSRDLLNKLSSEEKQLQLSALV 80
Cdd:COG2207    8 LLLLLLLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLLALLA 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489738217  81 DVLAFEGIQNHAEIYEFVKLRNDYHRWLVKLPVTTERYQPLVVQIIRDFAAIAKPNALAYNAHLESTLDVMYYTNAHLHD 160
Cdd:COG2207   88 LLLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLL 167

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489738217 161 QLSVKKVLAHVNarCNPESVRRSFSQEMHMSIRDYINAKKIQEAEHMLLATDLTIRAIAAELCFYDAADFSKRFKKETGQ 240
Cdd:COG2207  168 LLTLEELARELG--LSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGV 245

                        250
                 ....*....|.
gi 489738217 241 TPLEFRQLNTR 251
Cdd:COG2207  246 TPSEYRKRLRA 256
 
Name Accession Description Interval E-value
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 150-246 2.56e-17

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: 80.11  E-value: 2.56e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489738217  150 VMYYTNAHLHDQLSVKKVLAHVNARcnpES-VRRSFSQEMHMSIRDYINAKKIQEAEhMLLATDLTIRAIAAELCFYDAA 228
Cdd:TIGR04094 290 VIQYINLNLYDPLKVEEIAKQFFMS---ESkLRKLFKKEMGISIQEYISKRKIEEAK-YLLRSQIPVSEVSNELGFYDLS 365

                          90
                  ....*....|....*...
gi 489738217  229 DFSKRFKKETGQTPLEFR 246
Cdd:TIGR04094 366 HFSRTFKKHTGVSPKQYQ 383
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
1-251 7.54e-17

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 77.51  E-value: 7.54e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489738217   1 MGTELQFVQYLHQMRDYNDQHPTTKGLILLGYLERDFIRFYRAGKIEEGIQFAKKNLTRSRDLLNKLSSEEKQLQLSALV 80
Cdd:COG2207    8 LLLLLLLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLLALLA 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489738217  81 DVLAFEGIQNHAEIYEFVKLRNDYHRWLVKLPVTTERYQPLVVQIIRDFAAIAKPNALAYNAHLESTLDVMYYTNAHLHD 160
Cdd:COG2207   88 LLLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLL 167

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489738217 161 QLSVKKVLAHVNarCNPESVRRSFSQEMHMSIRDYINAKKIQEAEHMLLATDLTIRAIAAELCFYDAADFSKRFKKETGQ 240
Cdd:COG2207  168 LLTLEELARELG--LSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGV 245

                        250
                 ....*....|.
gi 489738217 241 TPLEFRQLNTR 251
Cdd:COG2207  246 TPSEYRKRLRA 256
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
161-246 9.24e-16

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 70.27  E-value: 9.24e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489738217   161 QLSVKKVLAHVNarCNPESVRRSFSQEMHMSIRDYINAKKIQEAEHMLLATDLTIRAIAAELCFYDAADFSKRFKKETGQ 240
Cdd:smart00342   1 PLTLEDLAEALG--VSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGV 78


                   ....*.
gi 489738217   241 TPLEFR 246
Cdd:smart00342  79 TPSEYR 84
HTH_18 pfam12833
Helix-turn-helix domain;
173-247 2.90e-15

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 68.77  E-value: 2.90e-15
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 489738217  173 ARCNPESVRRSFSQEMHMSIRDYINAKKIQEAEHMLL-ATDLTIRAIAAELCFYDAADFSKRFKKETGQTPLEFRQ 247
Cdd:pfam12833   5 LGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLeDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 121-247 9.24e-13

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: 66.72  E-value: 9.24e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489738217 121 LVVQIIRD----FAAIAKPNALAYNAHLESTLDVMyytNAHLHDQLSVKKVLAHVNArcnpeSVR---RSFSQEMHMSIR 193
Cdd:COG4977  185 LVVDPRRPggqaQFSPLLVPLGHRDPRLARAQAWM---EANLEEPLSVDELARRAGM-----SPRtleRRFRAATGTTPA 256

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 489738217 194 DYINAKKIQEAEHMLLATDLTIRAIAAELCFYDAADFSKRFKKETGQTPLEFRQ 247
Cdd:COG4977  257 RYLQRLRLERARRLLETTDLSIEEIAAACGFGSASHFRRAFRRRFGVSPSAYRR 310
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
148-252 1.50e-09

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 56.91  E-value: 1.50e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489738217 148 LDVMYYTNAHLHDQLSVKKVLAHVnarC-NPESVRRSFSQEMHMSIRDYINAKKIQEAEHMLLATDLTIRAIAAELCFYD 226
Cdd:PRK10572 186 REACQYISDHLASEFDIESVAQHV---ClSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDD 262

                         90       100
                 ....*....|....*....|....*.
gi 489738217 227 AADFSKRFKKETGQTPLEFRQLNTRT 252
Cdd:PRK10572 263 QLYFSRVFKKCTGASPSEFRARCEEK 288
 
Name Accession Description Interval E-value
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 150-246 2.56e-17

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: 80.11  E-value: 2.56e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489738217  150 VMYYTNAHLHDQLSVKKVLAHVNARcnpES-VRRSFSQEMHMSIRDYINAKKIQEAEhMLLATDLTIRAIAAELCFYDAA 228
Cdd:TIGR04094 290 VIQYINLNLYDPLKVEEIAKQFFMS---ESkLRKLFKKEMGISIQEYISKRKIEEAK-YLLRSQIPVSEVSNELGFYDLS 365

                          90
                  ....*....|....*...
gi 489738217  229 DFSKRFKKETGQTPLEFR 246
Cdd:TIGR04094 366 HFSRTFKKHTGVSPKQYQ 383
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
1-251 7.54e-17

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 77.51  E-value: 7.54e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489738217   1 MGTELQFVQYLHQMRDYNDQHPTTKGLILLGYLERDFIRFYRAGKIEEGIQFAKKNLTRSRDLLNKLSSEEKQLQLSALV 80
Cdd:COG2207    8 LLLLLLLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLLALLA 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489738217  81 DVLAFEGIQNHAEIYEFVKLRNDYHRWLVKLPVTTERYQPLVVQIIRDFAAIAKPNALAYNAHLESTLDVMYYTNAHLHD 160
Cdd:COG2207   88 LLLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLL 167

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489738217 161 QLSVKKVLAHVNarCNPESVRRSFSQEMHMSIRDYINAKKIQEAEHMLLATDLTIRAIAAELCFYDAADFSKRFKKETGQ 240
Cdd:COG2207  168 LLTLEELARELG--LSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGV 245

                        250
                 ....*....|.
gi 489738217 241 TPLEFRQLNTR 251
Cdd:COG2207  246 TPSEYRKRLRA 256
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
161-246 9.24e-16

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 70.27  E-value: 9.24e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489738217   161 QLSVKKVLAHVNarCNPESVRRSFSQEMHMSIRDYINAKKIQEAEHMLLATDLTIRAIAAELCFYDAADFSKRFKKETGQ 240
Cdd:smart00342   1 PLTLEDLAEALG--VSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGV 78


                   ....*.
gi 489738217   241 TPLEFR 246
Cdd:smart00342  79 TPSEYR 84
HTH_18 pfam12833
Helix-turn-helix domain;
173-247 2.90e-15

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 68.77  E-value: 2.90e-15
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 489738217  173 ARCNPESVRRSFSQEMHMSIRDYINAKKIQEAEHMLL-ATDLTIRAIAAELCFYDAADFSKRFKKETGQTPLEFRQ 247
Cdd:pfam12833   5 LGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLeDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 121-247 9.24e-13

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: 66.72  E-value: 9.24e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489738217 121 LVVQIIRD----FAAIAKPNALAYNAHLESTLDVMyytNAHLHDQLSVKKVLAHVNArcnpeSVR---RSFSQEMHMSIR 193
Cdd:COG4977  185 LVVDPRRPggqaQFSPLLVPLGHRDPRLARAQAWM---EANLEEPLSVDELARRAGM-----SPRtleRRFRAATGTTPA 256

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 489738217 194 DYINAKKIQEAEHMLLATDLTIRAIAAELCFYDAADFSKRFKKETGQTPLEFRQ 247
Cdd:COG4977  257 RYLQRLRLERARRLLETTDLSIEEIAAACGFGSASHFRRAFRRRFGVSPSAYRR 310
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
148-252 1.50e-09

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 56.91  E-value: 1.50e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489738217 148 LDVMYYTNAHLHDQLSVKKVLAHVnarC-NPESVRRSFSQEMHMSIRDYINAKKIQEAEHMLLATDLTIRAIAAELCFYD 226
Cdd:PRK10572 186 REACQYISDHLASEFDIESVAQHV---ClSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDD 262

                         90       100
                 ....*....|....*....|....*.
gi 489738217 227 AADFSKRFKKETGQTPLEFRQLNTRT 252
Cdd:PRK10572 263 QLYFSRVFKKCTGASPSEFRARCEEK 288
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
173-253 3.01e-09

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 56.26  E-value: 3.01e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489738217 173 ARCNPESVRRSFSQEMHMSIRDYINAKKIQEAEHMLLATDLTIRAIAAELCFYDAADFSKRFKKETGQTPLEFRQLNTRT 252
Cdd:PRK13500 232 ASCSERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQHSRLLISDISTECGFEDSNYFSVVFTRETGMTPSQWRHLNSQK 311


                 .
gi 489738217 253 D 253
Cdd:PRK13500 312 D 312
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
174-253 5.44e-08

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 52.36  E-value: 5.44e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489738217 174 RCNPESVRRSFSQEMHMSIRDYINAKKIQEAEHMLLATDLTIRAIAAELCFYDAADFSKRFKKETGQTPLEFRQLNTRTD 253
Cdd:PRK13502 203 QCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQCGFEDSNYFSVVFTRETGMTPSQWRHLSNQSD 282
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
179-247 2.85e-06

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 47.21  E-value: 2.85e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 489738217 179 SVRRSFSQEMHMSIRDYINAKKIQEAEHMLLATDLTIRAIAAELCFYDAADFSKRFKKETGQTPLEFRQ 247
Cdd:PRK13501 208 SLKQLFRQQTGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFSAVFTREAGMTPRDYRQ 276
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 168-253 5.62e-06

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: 46.59  E-value: 5.62e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489738217 168 LAHVNARCN--PESVRRSFSQEMHMSIRDYINAKKIQEAEHmLLATDLTIRAIAAELCFYDAADFSKRFKKETGQTPLEF 245
Cdd:COG2169  103 LEDLAARLGlsPRHLRRLFKAHTGVTPKAYARARRLLRARQ-LLQTGLSVTDAAYAAGFGSLSRFYEAFKKLLGMTPSAY 181


                 ....*...
gi 489738217 246 RQLNTRTD 253
Cdd:COG2169  182 RRGGAGAA 189
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 209-247 7.32e-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: 42.14  E-value: 7.32e-06
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 489738217  209 LATDLTIRAIAAELCFyDAADFSKRFKKETGQTPLEFRQ 247
Cdd:pfam00165   5 LSTNLTIADIADELGF-SRSYFSRLFKKYTGVTPSQYRH 42
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
180-247 4.94e-04

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 38.75  E-value: 4.94e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 489738217 180 VRRSFSQEMHMSIRDYINAKKIQEAEHMLLATDLTIRAIAAELCFYDAADFSKRFKKETGQTPLEFRQ 247
Cdd:PRK10219  38 LQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQTFSRVFRRQFDRTPSDYRH 105
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 163-247 6.08e-04

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 40.40  E-value: 6.08e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489738217 163 SVKKVLAHVNARCNPESVRRSF-SQEMHMSIR---------DYINAKKIQEAEHMLLATDL-------TIRAIAAELCFY 225
Cdd:PRK09685 198 QFQKVVALIDQSIQEEILRPEWiAGELGISVRslyrlfaeqGLVVAQYIRNRRLDRCADDLrpaaddeKITSIAYKWGFS 277

                         90       100
                 ....*....|....*....|..
gi 489738217 226 DAADFSKRFKKETGQTPLEFRQ 247
Cdd:PRK09685 278 DSSHFSTAFKQRFGVSPGEYRR 299
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
182-247 6.90e-04

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 40.05  E-value: 6.90e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 489738217 182 RSFSQEMHMSIRDYINAKKIQEAEHMLLATDLTIRAIAAELCFYDAADFSKRFKKETGQTPLEFRQ 247
Cdd:PRK13503 206 RQLKQQTGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDSNHFSTLFRREFSWSPRDIRQ 271
 
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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