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MULTISPECIES: PocR ligand-binding domain-containing protein [Enterococcus]

Protein Classification

AraC family transcriptional regulator; AraC family transcriptional regulator; AraC family transcriptional regulator; PocR and AraC domain-containing protein( domain architecture ID 10008955)

AraC family transcriptional regulator controls the expression of genes with diverse biological functions including metabolism, stress response, and virulence; AraC family transcriptional regulator controls the expression of genes with diverse biological functions including metabolism, stress response, and virulence; AraC family transcriptional regulator controls the expression of genes with diverse biological functions including metabolism, stress response, and virulence; PocR and AraC domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PocR COG4936
Ligand-binding sensor domain [Signal transduction mechanisms];
15-298 1.01e-41

Ligand-binding sensor domain [Signal transduction mechanisms];


:

Pssm-ID: 443963 [Multi-domain]  Cd Length: 415  Bit Score: 148.79  E-value: 1.01e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693  15 LSKTIQDFALAADFGSVLVDIHGKETSDLYNFSPFCQLMRSNPEFKSLCQKCDAFGGLEASKNGDPCIYRCHAGLTDISL 94
Cdd:COG4936   10 LQKLLDSFSKATGLAAVIVDPEGNPLTKPSNFQDFCRLIRSTPEGRKRCRESDARGGLEAAKTGKPYIYRCHAGLVDFAV 89

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693  95 PIISNNQLIGFALFGQVEITDDDKNPYTRIHPivTHWETSPELRQARGKVKTVSTTQIESAAALLKTIGDYHFNDSdpRE 174
Cdd:COG4936   90 PIIVEGEHLGNILGGQVLLEEPDEEEFRKIAR--ELGFDEEELLEALEEVPVVSEEKVQAAAELLFVIANYISELG--YS 165

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693 175 QIKFNFHPSKKEAKDSIISKNDEIRKAISYIDTNLTTNLTLEDVANHVYLSQFYFSRLFKKEIGVSFITYLNQQRIEQAK 254
Cdd:COG4936  166 NLEEELELLLQQSEKEEEEEERKELEALSSELSLLLLELLLVLVSLLLILLALKILLLLLLLLLLIEFLLVVEEKELLAL 245

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....
gi 510806693 255 VLLTQSNLSIKSISQNIGYSQTSYFCKIFKELVGMTPVNYRKIK 298
Cdd:COG4936  246 LLLLELLALEAAGIGEKLYFSLVLILKRKLIVVVIRERDELLEI 289
 
Name Accession Description Interval E-value
PocR COG4936
Ligand-binding sensor domain [Signal transduction mechanisms];
15-298 1.01e-41

Ligand-binding sensor domain [Signal transduction mechanisms];


Pssm-ID: 443963 [Multi-domain]  Cd Length: 415  Bit Score: 148.79  E-value: 1.01e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693  15 LSKTIQDFALAADFGSVLVDIHGKETSDLYNFSPFCQLMRSNPEFKSLCQKCDAFGGLEASKNGDPCIYRCHAGLTDISL 94
Cdd:COG4936   10 LQKLLDSFSKATGLAAVIVDPEGNPLTKPSNFQDFCRLIRSTPEGRKRCRESDARGGLEAAKTGKPYIYRCHAGLVDFAV 89

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693  95 PIISNNQLIGFALFGQVEITDDDKNPYTRIHPivTHWETSPELRQARGKVKTVSTTQIESAAALLKTIGDYHFNDSdpRE 174
Cdd:COG4936   90 PIIVEGEHLGNILGGQVLLEEPDEEEFRKIAR--ELGFDEEELLEALEEVPVVSEEKVQAAAELLFVIANYISELG--YS 165

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693 175 QIKFNFHPSKKEAKDSIISKNDEIRKAISYIDTNLTTNLTLEDVANHVYLSQFYFSRLFKKEIGVSFITYLNQQRIEQAK 254
Cdd:COG4936  166 NLEEELELLLQQSEKEEEEEERKELEALSSELSLLLLELLLVLVSLLLILLALKILLLLLLLLLLIEFLLVVEEKELLAL 245

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....
gi 510806693 255 VLLTQSNLSIKSISQNIGYSQTSYFCKIFKELVGMTPVNYRKIK 298
Cdd:COG4936  246 LLLLELLALEAAGIGEKLYFSLVLILKRKLIVVVIRERDELLEI 289
PocR pfam10114
Sensory domain found in PocR; PocR, a ligand binding domain, has a novel variant of the ...
 19-165 1.77e-40

Sensory domain found in PocR; PocR, a ligand binding domain, has a novel variant of the PAS-like Fold. Evidence suggests that it binds small hydrocarbon derivatives such as 1,3-propanediol. In (Natural history of sensor domains in bacterial signaling systems by Aravind L, LM Iyer, Anantharaman V, from 'Sensory Mechanisms in Bacteria: Molecular Aspects of Signal Recognition.' Caister Academic Press. 2010) - see (http://de.scribd.com/doc/28576661/Bacterial-Signaling-Chapter)


Pssm-ID: 462959  Cd Length: 155  Bit Score: 138.09  E-value: 1.77e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693   19 IQD-FALAADFGSVLVDIHGKETSDLYNFSPFCQLMRSNPEFKSLCQKCDAFGGLEASKNGDPCIYRCHAGLTDISLPII 97
Cdd:pfam10114   5 LQDsFSKATGLAIVIVDLDGNPLTEPSNFTDFCKFIRSTPEGRKRCRESDARGGREAAKPGEPYIYRCHAGLVDFAAPII 84

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 510806693   98 SNNQLIGFALFGQVEITDDDKNpytRIHPIVTHWETSPE-LRQARGKVKTVSTTQIESAAALLKTIGDY 165
Cdd:pfam10114  85 VEGEHIGNIICGQVLLEDPDEE---EFREQAREIGFDEEeYLEALEKVPVLSEEKVRAAAELLFILANY 150
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
212-295 2.16e-32

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 114.96  E-value: 2.16e-32
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693   212 NLTLEDVANHVYLSQFYFSRLFKKEIGVSFITYLNQQRIEQAKVLLTQSNLSIKSISQNIGYSQTSYFCKIFKELVGMTP 291
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 510806693   292 VNYR 295
Cdd:smart00342  81 SEYR 84
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
183-296 6.08e-24

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 98.51  E-value: 6.08e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693 183 SKKEAKDSIISKND-EIRKAISYIDTNLTTNLTLEDVANHVYLSQFYFSRLFKKEIGVSFITYLNQQRIEQAKVLLTQSN 261
Cdd:PRK10572 169 CMEAIPESLHPPMDpRVREACQYISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTR 248

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 510806693 262 LSIKSISQNIGYSQTSYFCKIFKELVGMTPVNYRK 296
Cdd:PRK10572 249 MPIATIGRNVGYDDQLYFSRVFKKCTGASPSEFRA 283
 
Name Accession Description Interval E-value
PocR COG4936
Ligand-binding sensor domain [Signal transduction mechanisms];
15-298 1.01e-41

Ligand-binding sensor domain [Signal transduction mechanisms];


Pssm-ID: 443963 [Multi-domain]  Cd Length: 415  Bit Score: 148.79  E-value: 1.01e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693  15 LSKTIQDFALAADFGSVLVDIHGKETSDLYNFSPFCQLMRSNPEFKSLCQKCDAFGGLEASKNGDPCIYRCHAGLTDISL 94
Cdd:COG4936   10 LQKLLDSFSKATGLAAVIVDPEGNPLTKPSNFQDFCRLIRSTPEGRKRCRESDARGGLEAAKTGKPYIYRCHAGLVDFAV 89

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693  95 PIISNNQLIGFALFGQVEITDDDKNPYTRIHPivTHWETSPELRQARGKVKTVSTTQIESAAALLKTIGDYHFNDSdpRE 174
Cdd:COG4936   90 PIIVEGEHLGNILGGQVLLEEPDEEEFRKIAR--ELGFDEEELLEALEEVPVVSEEKVQAAAELLFVIANYISELG--YS 165

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693 175 QIKFNFHPSKKEAKDSIISKNDEIRKAISYIDTNLTTNLTLEDVANHVYLSQFYFSRLFKKEIGVSFITYLNQQRIEQAK 254
Cdd:COG4936  166 NLEEELELLLQQSEKEEEEEERKELEALSSELSLLLLELLLVLVSLLLILLALKILLLLLLLLLLIEFLLVVEEKELLAL 245

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....
gi 510806693 255 VLLTQSNLSIKSISQNIGYSQTSYFCKIFKELVGMTPVNYRKIK 298
Cdd:COG4936  246 LLLLELLALEAAGIGEKLYFSLVLILKRKLIVVVIRERDELLEI 289
PocR pfam10114
Sensory domain found in PocR; PocR, a ligand binding domain, has a novel variant of the ...
 19-165 1.77e-40

Sensory domain found in PocR; PocR, a ligand binding domain, has a novel variant of the PAS-like Fold. Evidence suggests that it binds small hydrocarbon derivatives such as 1,3-propanediol. In (Natural history of sensor domains in bacterial signaling systems by Aravind L, LM Iyer, Anantharaman V, from 'Sensory Mechanisms in Bacteria: Molecular Aspects of Signal Recognition.' Caister Academic Press. 2010) - see (http://de.scribd.com/doc/28576661/Bacterial-Signaling-Chapter)


Pssm-ID: 462959  Cd Length: 155  Bit Score: 138.09  E-value: 1.77e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693   19 IQD-FALAADFGSVLVDIHGKETSDLYNFSPFCQLMRSNPEFKSLCQKCDAFGGLEASKNGDPCIYRCHAGLTDISLPII 97
Cdd:pfam10114   5 LQDsFSKATGLAIVIVDLDGNPLTEPSNFTDFCKFIRSTPEGRKRCRESDARGGREAAKPGEPYIYRCHAGLVDFAAPII 84

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 510806693   98 SNNQLIGFALFGQVEITDDDKNpytRIHPIVTHWETSPE-LRQARGKVKTVSTTQIESAAALLKTIGDY 165
Cdd:pfam10114  85 VEGEHIGNIICGQVLLEDPDEE---EFREQAREIGFDEEeYLEALEKVPVLSEEKVRAAAELLFILANY 150
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
212-295 2.16e-32

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 114.96  E-value: 2.16e-32
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693   212 NLTLEDVANHVYLSQFYFSRLFKKEIGVSFITYLNQQRIEQAKVLLTQSNLSIKSISQNIGYSQTSYFCKIFKELVGMTP 291
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 510806693   292 VNYR 295
Cdd:smart00342  81 SEYR 84
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
209-296 1.42e-29

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 112.95  E-value: 1.42e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693 209 LTTNLTLEDVANHVYLSQFYFSRLFKKEIGVSFITYLNQQRIEQAKVLLTQSNLSIKSISQNIGYSQTSYFCKIFKELVG 288
Cdd:COG2207  165 LLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFG 244


                 ....*...
gi 510806693 289 MTPVNYRK 296
Cdd:COG2207  245 VTPSEYRK 252
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 195-296 8.01e-27

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: 106.78  E-value: 8.01e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693 195 NDEIRKAISYIDTNLTTNLTLEDVANHVYLSQFYFSRLFKKEIGVSFITYLNQQRIEQAKVLLTQSNLSIKSISQNIGYS 274
Cdd:COG4977  209 DPRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFG 288

                         90       100
                 ....*....|....*....|..
gi 510806693 275 QTSYFCKIFKELVGMTPVNYRK 296
Cdd:COG4977  289 SASHFRRAFRRRFGVSPSAYRR 310
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
183-296 6.08e-24

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 98.51  E-value: 6.08e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693 183 SKKEAKDSIISKND-EIRKAISYIDTNLTTNLTLEDVANHVYLSQFYFSRLFKKEIGVSFITYLNQQRIEQAKVLLTQSN 261
Cdd:PRK10572 169 CMEAIPESLHPPMDpRVREACQYISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTR 248

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 510806693 262 LSIKSISQNIGYSQTSYFCKIFKELVGMTPVNYRK 296
Cdd:PRK10572 249 MPIATIGRNVGYDDQLYFSRVFKKCTGASPSEFRA 283
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 196-296 4.75e-22

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: 94.35  E-value: 4.75e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693 196 DEIRKAISYIDTNLTTNLTLEDVANHVYLSQFYFSRLFKKEIGVSFITYLNQQRIEQAKVLLtQSNLSIKSISQNIGYSQ 275
Cdd:COG2169   84 DLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLL-QTGLSVTDAAYAAGFGS 162

                         90       100
                 ....*....|....*....|.
gi 510806693 276 TSYFCKIFKELVGMTPVNYRK 296
Cdd:COG2169  163 LSRFYEAFKKLLGMTPSAYRR 183
HTH_18 pfam12833
Helix-turn-helix domain;
218-296 9.35e-21

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 84.18  E-value: 9.35e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693  218 VANHVYLSQFYFSRLFKKEIGVSFITYLNQQRIEQAKVLLTQ-SNLSIKSISQNIGYSQTSYFCKIFKELVGMTPVNYRK 296
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEdTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
PRK10371 PRK10371
transcriptional regulator MelR;
198-297 9.32e-15

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 72.93  E-value: 9.32e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693 198 IRKAISYIDTNLTTNLTLEDVANHVYLSQFYFSRLFKKEIGVSFITYLNQQRIEQAKVLLTQSNLSIKSISQNIGYSQTS 277
Cdd:PRK10371 193 VSQMLGFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLSDTDKSILDIALTAGFRSSS 272

                         90       100
                 ....*....|....*....|
gi 510806693 278 YFCKIFKELVGMTPVNYRKI 297
Cdd:PRK10371 273 RFYSTFGKYVGMSPQQYRKL 292
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
192-295 5.54e-10

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 55.70  E-value: 5.54e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693 192 ISKNDEIRKAISYIDTNLTTNLTLEDVANHVYLSQFYFSRLFKKEIGVSFITYLNQQRIEQAKVLLTQSNLSIKSISQNI 271
Cdd:PRK10219   1 MSHQKIIQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDL 80

                         90       100
                 ....*....|....*....|....
gi 510806693 272 GYSQTSYFCKIFKELVGMTPVNYR 295
Cdd:PRK10219  81 GYVSQQTFSRVFRRQFDRTPSDYR 104
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
202-296 7.23e-10

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 58.76  E-value: 7.23e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693 202 ISYIDTNLTTNLTLEDVANHVYLSQFYFSRLFKKEIGVSFITYLNQQRIEQAKVLLTQSNLSIKSISQNIGYSQTSYFCK 281
Cdd:PRK13501 182 MSALQQSLGAYFDMADFCHKNQLVERSLKQLFRQQTGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFSA 261

                         90
                 ....*....|....*
gi 510806693 282 IFKELVGMTPVNYRK 296
Cdd:PRK13501 262 VFTREAGMTPRDYRQ 276
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 205-246 8.01e-10

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: 53.31  E-value: 8.01e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 510806693  205 IDTNLTTNLTLEDVANHVYLSQFYFSRLFKKEIGVSFITYLN 246
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYTGVTPSQYRH 42
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
198-295 3.04e-09

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 54.34  E-value: 3.04e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693 198 IRKAISYIDTNLTTNLTLEDVANHVYLSQFYFSRLFKKEIGVSFITYLNQQRIEQAKVLLTQSNLSIKSISQNIGYSQTS 277
Cdd:PRK11511  11 IHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYLAERYGFESQQ 90

                         90
                 ....*....|....*...
gi 510806693 278 YFCKIFKELVGMTPVNYR 295
Cdd:PRK11511  91 TLTRTFKNYFDVPPHKYR 108
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
200-297 1.43e-08

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 55.11  E-value: 1.43e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693 200 KAISYIDTNLTTNLTLEDVANHVYLSQFYFSRLFKKEIGVSFITYLNQQRIEQAKVLLTQSNLSIKSISQNIGYSQTSYF 279
Cdd:PRK13500 210 KLITRLAASLKSPFALDKFCDEASCSERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQHSRLLISDISTECGFEDSNYF 289

                         90
                 ....*....|....*...
gi 510806693 280 CKIFKELVGMTPVNYRKI 297
Cdd:PRK13500 290 SVVFTRETGMTPSQWRHL 307
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
191-297 2.00e-08

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 54.29  E-value: 2.00e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693 191 IISKNDEIRKAISYIDTNLTTNLTLEDVANHVYLSQFYFSRLFKKEIGVSFITYLNQQRIEQAKVLLTQSNLSIKSISQN 270
Cdd:PRK13502 171 ATSRETLLDKLITALANSLECPFALDAFCQQEQCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQ 250

                         90       100
                 ....*....|....*....|....*..
gi 510806693 271 IGYSQTSYFCKIFKELVGMTPVNYRKI 297
Cdd:PRK13502 251 CGFEDSNYFSVVFTRETGMTPSQWRHL 277
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 258-296 3.84e-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: 3.84e-07
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 510806693  258 TQSNLSIKSISQNIGYSQtSYFCKIFKELVGMTPVNYRK 296
Cdd:pfam00165   5 LSTNLTIADIADELGFSR-SYFSRLFKKYTGVTPSQYRH 42
PRK10296 PRK10296
DNA-binding transcriptional regulator ChbR; Provisional
 225-296 1.17e-06

DNA-binding transcriptional regulator ChbR; Provisional


Pssm-ID: 182362 [Multi-domain]  Cd Length: 278  Bit Score: 48.99  E-value: 1.17e-06
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 510806693 225 SQFYFSRLFKKEIGVSFITYLNQQRIEQAKVLLTQSNLSIKSISQNIGYSQTSYFCKIFKELVGMTPVNYRK 296
Cdd:PRK10296 201 SQEYLTRATRRYYGKTPMQIINEIRINFAKKQLEMTNYSVTDIAFEAGYSSPSLFIKTFKKLTSFTPGSYRK 272
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 197-296 1.18e-06

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 48.87  E-value: 1.18e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693 197 EIRKAISYIDTNLTT-NLTLEDVANHVYLSQFYFSRLFKKEiGVSFITYLNQQRIEQ-AKVLLTQS-NLSIKSISQNIGY 273
Cdd:PRK09685 198 QFQKVVALIDQSIQEeILRPEWIAGELGISVRSLYRLFAEQ-GLVVAQYIRNRRLDRcADDLRPAAdDEKITSIAYKWGF 276

                         90       100
                 ....*....|....*....|...
gi 510806693 274 SQTSYFCKIFKELVGMTPVNYRK 296
Cdd:PRK09685 277 SDSSHFSTAFKQRFGVSPGEYRR 299
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 205-295 1.59e-06

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 48.38  E-value: 1.59e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693 205 IDTNLTTNLTLEDVANHVYLSQFYFSRLFKKEiGVSFITYLNQQRIEQAKVLLTQSNLSIKSISQNIGYSQTSYFCKIFK 284
Cdd:PRK09978 151 INNNIAHEWTLARIASELLMSPSLLKKKLREE-ETSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYVFR 229

                         90
                 ....*....|.
gi 510806693 285 ELVGMTPVNYR 295
Cdd:PRK09978 230 NYYGMTPTEYQ 240
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
 191-296 6.16e-06

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 46.91  E-value: 6.16e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693 191 IISKNDEI---RKAISYIDTNLTTNLTLEDVANHVYLSQFYFSRLFKKEiGVSFITYLNQQRIEQAKVLLTQSNLSIKSI 267
Cdd:PRK15185 198 IILSSAQItlkERVYNIISSSPSRQWKLTDVADHIFMSTSTLKRKLAEE-GTSFSDIYLSARMNQAAKLLRIGNHNVNAV 276

                         90       100
                 ....*....|....*....|....*....
gi 510806693 268 SQNIGYSQTSYFCKIFKELVGMTPVNYRK 296
Cdd:PRK15185 277 ALKCGYDSTSYFIQCFKKYFKTTPSTFIK 305
ftrA PRK09393
transcriptional activator FtrA; Provisional
 202-296 1.33e-05

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 46.11  E-value: 1.33e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693 202 ISYIDTNLTTNLTLEDVANHVYLSQFYFSRLFKKEIGVSFITYLNQQRIEQAKVLLTQSNLSIKSISQNIGYSQTSYFCK 281
Cdd:PRK09393 224 IDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLESSALSIDQIAERAGFGSEESLRH 303

                         90
                 ....*....|....*
gi 510806693 282 IFKELVGMTPVNYRK 296
Cdd:PRK09393 304 HFRRRAATSPAAYRK 318
PRK15186 PRK15186
AraC family transcriptional regulator; Provisional
 192-294 9.51e-05

AraC family transcriptional regulator; Provisional


Pssm-ID: 185108 [Multi-domain]  Cd Length: 291  Bit Score: 43.13  E-value: 9.51e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693 192 ISKNDEIRKAISYIDTNLTTNLTLEDVANHVYLSQFYFSRLFKKEIGVSFITYLNQqRIEQAKVLLTQSNLSIKSISQNI 271
Cdd:PRK15186 177 LSQNTLAENIYNIIISDISRKWALKDISDSLYMSCSTLKRKLKQENTSFSEVYLNA-RMNKATKLLRNSEYNITRVAYMC 255

                         90       100
                 ....*....|....*....|...
gi 510806693 272 GYSQTSYFCKIFKELVGMTPVNY 294
Cdd:PRK15186 256 GYDSASYFTCVFKKHFKTTPSEF 278
PRK15435 PRK15435
bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;
211-296 1.29e-04

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


Pssm-ID: 185333 [Multi-domain]  Cd Length: 353  Bit Score: 42.86  E-value: 1.29e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693 211 TNLTLEDVANHVYLSQFYFSRLFKKEIGVSFITYLNQQRIEQAKVLLTQSNlSIKSISQNIGYSQTSYFCKIFKELVGMT 290
Cdd:PRK15435  98 TPVTLEALADQVAMSPFHLHRLFKATTGMTPKAWQQAWRARRLREALAKGE-SVTTSILNAGFPDSSSYYRKADETLGMT 176


                 ....*.
gi 510806693 291 PVNYRK 296
Cdd:PRK15435 177 AKQFRH 182
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
198-249 1.84e-04

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 42.07  E-value: 1.84e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 510806693 198 IRKAISYIdtnLTTNLTLEDVANHV-YLSQFYFSRLFKKEIGVSFITYLNQQR 249
Cdd:COG2207  206 LERAKRLL---AETDLSISEIAYELgFSSQSHFSRAFKKRFGVTPSEYRKRLR 255
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
197-295 2.92e-04

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 41.59  E-value: 2.92e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693 197 EIRKAISYIDTNLTTNLTLEDVANHVYLSQFYFSRLFKKEIGVSFITYLNQQRIEQAKVLLTQSNLSIKSISQNIGYSQT 276
Cdd:PRK13503 172 RLNQLLAWLEDHFAEEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDS 251

                         90
                 ....*....|....*....
gi 510806693 277 SYFCKIFKELVGMTPVNYR 295
Cdd:PRK13503 252 NHFSTLFRREFSWSPRDIR 270
PRK15340 PRK15340
AraC family transcriptional regulator InvF;
202-291 2.23e-03

AraC family transcriptional regulator InvF;


Pssm-ID: 185240  Cd Length: 216  Bit Score: 38.42  E-value: 2.23e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693 202 ISYIDTNLTTNLTLEDVANHVYLSQFYFSRLFKKEIGVSFITYLNQQRIEQAKVLLTQSNLSIKSISQNIGYSQTSYFCK 281
Cdd:PRK15340 115 VGYLLAQSTSGNTMRMLGEDYGVSYTHFRRLCSRALGGKAKSELRNWRMAQSLLNSVEGHENITQLAVNHGYSSPSHFSS 194

                         90
                 ....*....|
gi 510806693 282 IFKELVGMTP 291
Cdd:PRK15340 195 EIKELIGVSP 204
PRK09940 PRK09940
transcriptional regulator YdeO; Provisional
 200-291 2.76e-03

transcriptional regulator YdeO; Provisional


Pssm-ID: 182157 [Multi-domain]  Cd Length: 253  Bit Score: 38.53  E-value: 2.76e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510806693 200 KAISYIDTNLTTNLTLEDVANHVYLSQFYFSRLFKKEiGVSFITYLNQQRIEQAKVLLTQSNlSIKSISQNIGYSQTSYF 279
Cdd:PRK09940 138 KVRNIVNMKLAHPWKLKDICDCLYISESLLKKKLKQE-QTTFSQILLDARMQHAKNLIRVEG-SVNKIAEQCGYASTSYF 215

                         90
                 ....*....|..
gi 510806693 280 CKIFKELVGMTP 291
Cdd:PRK09940 216 IYAFRKHFGNSP 227
 
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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