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Conserved domains on  [gi|446514992|ref|WP_000592338|]
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helix-turn-helix domain-containing protein [Bacillus thuringiensis]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
319-402 4.87e-26

helix_turn_helix, arabinose operon control protein;


:

Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 100.32  E-value: 4.87e-26
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446514992   319 PISVKQLAKFANVNSDYLSILFKKEVGISLIEYIQRERIKEAKKLLTFTTYPLSDICASLNFSDQSYFTKIFKKFTNETP 398
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 446514992   399 GKYR 402
Cdd:smart00342  81 SEYR 84
adjacent_YSIRK super family cl37387
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 180-402 3.24e-23

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: 100.14  E-value: 3.24e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446514992  180 SMQKSESIYHNLYIEQQLLRSIENGDKETVLKYYYEFQQETLSSLSSfHQLRRHKNICISSITLATRYAIKGGLPSGIAY 259
Cdd:TIGR04094 163 SKQNFTSETYLFHYENQILELVKKGDIQQLKELVFQLSNSVIPIVSG-DDLRSEKNYSIIIFEKLSQLAIQMGVDIVDAY 241

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446514992  260 KIYDLHIQRTEDlkdKESVWDLLK---NAFCTFADRVKAQKTQQHSQTIAICKNYIFKNIYNPISVKQLAKFANVNSDYL 336
Cdd:TIGR04094 242 RLRDYYIQEIEE---QTSLMDVLKlrdSAIIYFTELLHEISINHHSPLIRAVIQYINLNLYDPLKVEEIAKQFFMSESKL 318

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 446514992  337 SILFKKEVGISLIEYIQRERIKEAKKLLTfTTYPLSDICASLNFSDQSYFTKIFKKFTNETPGKYR 402
Cdd:TIGR04094 319 RKLFKKEMGISIQEYISKRKIEEAKYLLR-SQIPVSEVSNELGFYDLSHFSRTFKKHTGVSPKQYQ 383
 
Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
319-402 4.87e-26

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 100.32  E-value: 4.87e-26
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446514992   319 PISVKQLAKFANVNSDYLSILFKKEVGISLIEYIQRERIKEAKKLLTFTTYPLSDICASLNFSDQSYFTKIFKKFTNETP 398
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 446514992   399 GKYR 402
Cdd:smart00342  81 SEYR 84
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
320-405 9.44e-26

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 104.86  E-value: 9.44e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446514992 320 ISVKQLAKFANVNSDYLSILFKKEVGISLIEYIQRERIKEAKKLLTFTTYPLSDICASLNFSDQSYFTKIFKKFTNETPG 399
Cdd:COG2207  169 LTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPS 248


                 ....*.
gi 446514992 400 KYRKSH 405
Cdd:COG2207  249 EYRKRL 254
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 180-402 3.24e-23

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: 100.14  E-value: 3.24e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446514992  180 SMQKSESIYHNLYIEQQLLRSIENGDKETVLKYYYEFQQETLSSLSSfHQLRRHKNICISSITLATRYAIKGGLPSGIAY 259
Cdd:TIGR04094 163 SKQNFTSETYLFHYENQILELVKKGDIQQLKELVFQLSNSVIPIVSG-DDLRSEKNYSIIIFEKLSQLAIQMGVDIVDAY 241

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446514992  260 KIYDLHIQRTEDlkdKESVWDLLK---NAFCTFADRVKAQKTQQHSQTIAICKNYIFKNIYNPISVKQLAKFANVNSDYL 336
Cdd:TIGR04094 242 RLRDYYIQEIEE---QTSLMDVLKlrdSAIIYFTELLHEISINHHSPLIRAVIQYINLNLYDPLKVEEIAKQFFMSESKL 318

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 446514992  337 SILFKKEVGISLIEYIQRERIKEAKKLLTfTTYPLSDICASLNFSDQSYFTKIFKKFTNETPGKYR 402
Cdd:TIGR04094 319 RKLFKKEMGISIQEYISKRKIEEAKYLLR-SQIPVSEVSNELGFYDLSHFSRTFKKHTGVSPKQYQ 383
HTH_18 pfam12833
Helix-turn-helix domain;
325-404 3.94e-22

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 89.57  E-value: 3.94e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446514992  325 LAKFANVNSDYLSILFKKEVGISLIEYIQRERIKEAKKLLTFTT-YPLSDICASLNFSDQSYFTKIFKKFTNETPGKYRK 403
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEDTgLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 446514992  404 S 404
Cdd:pfam12833  81 R 81
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
305-405 1.76e-17

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 81.94  E-value: 1.76e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446514992 305 IAICkNYIFKNIYNPISVKQLAKFANVNSDYLSILFKKEVGISLIEYIQRERIKEAKKLLTFTTYPLSDICASLNFSDQS 384
Cdd:PRK10572 186 REAC-QYISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQL 264

                         90       100
                 ....*....|....*....|.
gi 446514992 385 YFTKIFKKFTNETPGKYRKSH 405
Cdd:PRK10572 265 YFSRVFKKCTGASPSEFRARC 285
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 216-405 9.09e-06

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 46.95  E-value: 9.09e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446514992 216 FQQ--ETLSSLSSFHQLRRHknICISSITLATRyaIKGGLPSGIAYKIYDLHIQRTEDLKDKESvwDLLKNAFCT----- 288
Cdd:PRK09685 111 PQGlsEQISLLLPRELVEQY--FPGQKPACAGR--LSASLPMVQLSHRLLQQSMNGPALSETES--EALLEALIAllrpa 184

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446514992 289 FADRVKAQ--KTQQHSQTIAIcknyIFKNIYNP-ISVKQLAKFANVNSDYLSILFKKEvGISLIEYIQRERIKEAKKLLT 365
Cdd:PRK09685 185 LHQRESVQprRERQFQKVVAL----IDQSIQEEiLRPEWIAGELGISVRSLYRLFAEQ-GLVVAQYIRNRRLDRCADDLR 259

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|..
gi 446514992 366 --FTTYPLSDICASLNFSDQSYFTKIFKKFTNETPGKYRKSH 405
Cdd:PRK09685 260 paADDEKITSIAYKWGFSDSSHFSTAFKQRFGVSPGEYRRKF 301
 
Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
319-402 4.87e-26

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 100.32  E-value: 4.87e-26
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446514992   319 PISVKQLAKFANVNSDYLSILFKKEVGISLIEYIQRERIKEAKKLLTFTTYPLSDICASLNFSDQSYFTKIFKKFTNETP 398
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 446514992   399 GKYR 402
Cdd:smart00342  81 SEYR 84
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
320-405 9.44e-26

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 104.86  E-value: 9.44e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446514992 320 ISVKQLAKFANVNSDYLSILFKKEVGISLIEYIQRERIKEAKKLLTFTTYPLSDICASLNFSDQSYFTKIFKKFTNETPG 399
Cdd:COG2207  169 LTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPS 248


                 ....*.
gi 446514992 400 KYRKSH 405
Cdd:COG2207  249 EYRKRL 254
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 180-402 3.24e-23

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: 100.14  E-value: 3.24e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446514992  180 SMQKSESIYHNLYIEQQLLRSIENGDKETVLKYYYEFQQETLSSLSSfHQLRRHKNICISSITLATRYAIKGGLPSGIAY 259
Cdd:TIGR04094 163 SKQNFTSETYLFHYENQILELVKKGDIQQLKELVFQLSNSVIPIVSG-DDLRSEKNYSIIIFEKLSQLAIQMGVDIVDAY 241

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446514992  260 KIYDLHIQRTEDlkdKESVWDLLK---NAFCTFADRVKAQKTQQHSQTIAICKNYIFKNIYNPISVKQLAKFANVNSDYL 336
Cdd:TIGR04094 242 RLRDYYIQEIEE---QTSLMDVLKlrdSAIIYFTELLHEISINHHSPLIRAVIQYINLNLYDPLKVEEIAKQFFMSESKL 318

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 446514992  337 SILFKKEVGISLIEYIQRERIKEAKKLLTfTTYPLSDICASLNFSDQSYFTKIFKKFTNETPGKYR 402
Cdd:TIGR04094 319 RKLFKKEMGISIQEYISKRKIEEAKYLLR-SQIPVSEVSNELGFYDLSHFSRTFKKHTGVSPKQYQ 383
HTH_18 pfam12833
Helix-turn-helix domain;
325-404 3.94e-22

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 89.57  E-value: 3.94e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446514992  325 LAKFANVNSDYLSILFKKEVGISLIEYIQRERIKEAKKLLTFTT-YPLSDICASLNFSDQSYFTKIFKKFTNETPGKYRK 403
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEDTgLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 446514992  404 S 404
Cdd:pfam12833  81 R 81
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
305-405 1.76e-17

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 81.94  E-value: 1.76e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446514992 305 IAICkNYIFKNIYNPISVKQLAKFANVNSDYLSILFKKEVGISLIEYIQRERIKEAKKLLTFTTYPLSDICASLNFSDQS 384
Cdd:PRK10572 186 REAC-QYISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQL 264

                         90       100
                 ....*....|....*....|.
gi 446514992 385 YFTKIFKKFTNETPGKYRKSH 405
Cdd:PRK10572 265 YFSRVFKKCTGASPSEFRARC 285
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 315-405 3.28e-17

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: 81.74  E-value: 3.28e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446514992 315 NIYNPISVKQLAKFANVNSDYLSILFKKEVGISLIEYIQRERIKEAKKLLTFTTYPLSDICASLNFSDQSYFTKIFKKFT 394
Cdd:COG4977  222 NLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSASHFRRAFRRRF 301

                         90
                 ....*....|.
gi 446514992 395 NETPGKYRKSH 405
Cdd:COG4977  302 GVSPSAYRRRF 312
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 298-406 2.97e-10

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: 61.22  E-value: 2.97e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446514992 298 TQQHSQTIAICKNYIFKNIYNPISVKQLAKFANVNSDYLSILFKKEVGISLIEYIQRERIKEAKKLLTfTTYPLSDICAS 377
Cdd:COG2169   79 SPPRADLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLLQ-TGLSVTDAAYA 157

                         90       100
                 ....*....|....*....|....*....
gi 446514992 378 LNFSDQSYFTKIFKKFTNETPGKYRKSHV 406
Cdd:COG2169  158 AGFGSLSRFYEAFKKLLGMTPSAYRRGGA 186
PRK10371 PRK10371
transcriptional regulator MelR;
311-403 4.64e-09

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 57.14  E-value: 4.64e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446514992 311 YIFKNIYNPISVKQLAKFANVNSDYLSILFKKEVGISLIEYIQRERIKEAKKLLTFTTYPLSDICASLNFSDQSYFTKIF 390
Cdd:PRK10371 199 FIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLSDTDKSILDIALTAGFRSSSRFYSTF 278

                         90
                 ....*....|...
gi 446514992 391 KKFTNETPGKYRK 403
Cdd:PRK10371 279 GKYVGMSPQQYRK 291
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
301-404 4.97e-09

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 53.78  E-value: 4.97e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446514992 301 HSQTIAICKNYIFKNIYNPISVKQLAKFANVNSDYLSILFKKEVGISLIEYIQRERIKEAKKLLTFTTYPLSDICASLNF 380
Cdd:PRK10219   3 HQKIIQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGY 82

                         90       100
                 ....*....|....*....|....
gi 446514992 381 SDQSYFTKIFKKFTNETPGKYRKS 404
Cdd:PRK10219  83 VSQQTFSRVFRRQFDRTPSDYRHR 106
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
304-406 1.12e-07

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 50.49  E-value: 1.12e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446514992 304 TIAICKNYIFKNIYNPISVKQLAKFANVNSDYLSILFKKEVGISLIEYIQRERIKEAKKLLTFTTYPLSDICASLNFSDQ 383
Cdd:PRK11511  10 TIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYLAERYGFESQ 89

                         90       100
                 ....*....|....*....|...
gi 446514992 384 SYFTKIFKKFTNETPGKYRKSHV 406
Cdd:PRK11511  90 QTLTRTFKNYFDVPPHKYRMTNM 112
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
336-406 1.63e-06

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 49.52  E-value: 1.63e-06
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446514992 336 LSILFKKEVGISLIEYIQRERIKEAKKLLTFTTYPLSDICASLNFSDQSYFTKIFKKFTNETPGKYRKSHV 406
Cdd:PRK13501 209 LKQLFRQQTGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFSAVFTREAGMTPRDYRQRFI 279
PRK10296 PRK10296
DNA-binding transcriptional regulator ChbR; Provisional
 356-404 1.68e-06

DNA-binding transcriptional regulator ChbR; Provisional


Pssm-ID: 182362 [Multi-domain]  Cd Length: 278  Bit Score: 49.37  E-value: 1.68e-06
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 446514992 356 RIKEAKKLLTFTTYPLSDICASLNFSDQSYFTKIFKKFTNETPGKYRKS 404
Cdd:PRK10296 225 RINFAKKQLEMTNYSVTDIAFEAGYSSPSLFIKTFKKLTSFTPGSYRKK 273
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
315-402 3.16e-06

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 48.56  E-value: 3.16e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446514992 315 NIYNPISVKQLAKFANVNSDYLSILFKKEVGISLIEYIQRERIKEAKKLLTFTTYPLSDICASLNFSDQSYFTKIFKKFT 394
Cdd:PRK13500 218 SLKSPFALDKFCDEASCSERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQHSRLLISDISTECGFEDSNYFSVVFTRET 297


                 ....*...
gi 446514992 395 NETPGKYR 402
Cdd:PRK13500 298 GMTPSQWR 305
PRK15121 PRK15121
MDR efflux pump AcrAB transcriptional activator RobA;
319-404 6.31e-06

MDR efflux pump AcrAB transcriptional activator RobA;


Pssm-ID: 185076 [Multi-domain]  Cd Length: 289  Bit Score: 47.70  E-value: 6.31e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446514992 319 PISVKQLAKFANVNSDYLSILFKKEVGISLIEYIQRERIKEAKKLLTFTTYPLSDICASLNFSDQSYFTKIFKKFTNETP 398
Cdd:PRK15121  21 PLSLDNVAAKAGYSKWHLQRMFKDVTGHAIGAYIRARRLSKAAVALRLTSRPILDIALQYRFDSQQTFTRAFKKQFAQTP 100


                 ....*.
gi 446514992 399 GKYRKS 404
Cdd:PRK15121 101 ALYRRS 106
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 216-405 9.09e-06

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 46.95  E-value: 9.09e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446514992 216 FQQ--ETLSSLSSFHQLRRHknICISSITLATRyaIKGGLPSGIAYKIYDLHIQRTEDLKDKESvwDLLKNAFCT----- 288
Cdd:PRK09685 111 PQGlsEQISLLLPRELVEQY--FPGQKPACAGR--LSASLPMVQLSHRLLQQSMNGPALSETES--EALLEALIAllrpa 184

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446514992 289 FADRVKAQ--KTQQHSQTIAIcknyIFKNIYNP-ISVKQLAKFANVNSDYLSILFKKEvGISLIEYIQRERIKEAKKLLT 365
Cdd:PRK09685 185 LHQRESVQprRERQFQKVVAL----IDQSIQEEiLRPEWIAGELGISVRSLYRLFAEQ-GLVVAQYIRNRRLDRCADDLR 259

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|..
gi 446514992 366 --FTTYPLSDICASLNFSDQSYFTKIFKKFTNETPGKYRKSH 405
Cdd:PRK09685 260 paADDEKITSIAYKWGFSDSSHFSTAFKQRFGVSPGEYRRKF 301
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
340-402 4.62e-05

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 44.66  E-value: 4.62e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 446514992 340 FKKEVGISLIEYIQRERIKEAKKLLTFTTYPLSDICASLNFSDQSYFTKIFKKFTNETPGKYR 402
Cdd:PRK13502 213 FRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQCGFEDSNYFSVVFTRETGMTPSQWR 275
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 371-403 7.88e-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: 7.88e-04
                          10        20        30
                  ....*....|....*....|....*....|...
gi 446514992  371 LSDICASLNFSdQSYFTKIFKKFTNETPGKYRK 403
Cdd:pfam00165  11 IADIADELGFS-RSYFSRLFKKYTGVTPSQYRH 42
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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