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Conserved domains on  [gi|446072136|ref|WP_000149991|]
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MULTISPECIES: acid resistance transcriptional activator GadW [Enterobacteriaceae]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK09940 super family cl42915
transcriptional regulator YdeO; Provisional
 1-235 2.91e-35

transcriptional regulator YdeO; Provisional


The actual alignment was detected with superfamily member PRK09940:

Pssm-ID: 182157 [Multi-domain]  Cd Length: 253  Bit Score: 125.97  E-value: 2.91e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446072136   1 MTHVCSVILIRRSFDIYHEQHKISLHNESIVLLEKNLADDFAFCSPDTRRLDIDELTVCHYLQ--NIRqlprNLGLHSKD 78
Cdd:PRK09940   1 MSLVCSVIFIHHAFNANILDKDYAFSDGEILMVDNAVRTHFEPYERHFKEIGFNENTIKKYLQctNIQ----TVTVPVPA 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446072136  79 RLLINQSPPMPLVTAIFDSFNESGVNSPILSNMLYLSCLSMFSHKKELIPLLFNSISTVSGKVERLISFDIAKRWYLRDI 158
Cdd:PRK09940  77 KFLRASNVPTGLLNEMIAYLNSEERNHHNFSELLLFSCLSIFAACKGFITLLTNGVLSVSGKVRNIVNMKLAHPWKLKDI 156

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 446072136 159 AERMYTSESLIKKKLQDENTCFSKILLASRMSMARRLLELrQIPLHTIAEKCGYSSTSYFINTFRQYYGVTPHQFAQ 235
Cdd:PRK09940 157 CDCLYISESLLKKKLKQEQTTFSQILLDARMQHAKNLIRV-EGSVNKIAEQCGYASTSYFIYAFRKHFGNSPKRVSK 232
 
Name Accession Description Interval E-value
PRK09940 PRK09940
transcriptional regulator YdeO; Provisional
 1-235 2.91e-35

transcriptional regulator YdeO; Provisional


Pssm-ID: 182157 [Multi-domain]  Cd Length: 253  Bit Score: 125.97  E-value: 2.91e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446072136   1 MTHVCSVILIRRSFDIYHEQHKISLHNESIVLLEKNLADDFAFCSPDTRRLDIDELTVCHYLQ--NIRqlprNLGLHSKD 78
Cdd:PRK09940   1 MSLVCSVIFIHHAFNANILDKDYAFSDGEILMVDNAVRTHFEPYERHFKEIGFNENTIKKYLQctNIQ----TVTVPVPA 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446072136  79 RLLINQSPPMPLVTAIFDSFNESGVNSPILSNMLYLSCLSMFSHKKELIPLLFNSISTVSGKVERLISFDIAKRWYLRDI 158
Cdd:PRK09940  77 KFLRASNVPTGLLNEMIAYLNSEERNHHNFSELLLFSCLSIFAACKGFITLLTNGVLSVSGKVRNIVNMKLAHPWKLKDI 156

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 446072136 159 AERMYTSESLIKKKLQDENTCFSKILLASRMSMARRLLELrQIPLHTIAEKCGYSSTSYFINTFRQYYGVTPHQFAQ 235
Cdd:PRK09940 157 CDCLYISESLLKKKLKQEQTTFSQILLDARMQHAKNLIRV-EGSVNKIAEQCGYASTSYFIYAFRKHFGNSPKRVSK 232
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
152-233 6.86e-24

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 91.08  E-value: 6.86e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446072136   152 RWYLRDIAERMYTSESLIKKKLQDE-NTCFSKILLASRMSMARRLLELRQIPLHTIAEKCGYSSTSYFINTFRQYYGVTP 230
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKEtGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ...
gi 446072136   231 HQF 233
Cdd:smart00342  81 SEY 83
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
155-236 1.79e-12

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 65.19  E-value: 1.79e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446072136 155 LRDIAERMYTSESLIKKKLQDE-NTCFSKILLASRMSMARRLLELRQIPLHTIAEKCGYSSTSYFINTFRQYYGVTPHQF 233
Cdd:COG2207  171 LEELARELGLSPRTLSRLFKEEtGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEY 250


                 ...
gi 446072136 234 AQH 236
Cdd:COG2207  251 RKR 253
HTH_18 pfam12833
Helix-turn-helix domain;
158-233 7.67e-11

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 56.83  E-value: 7.67e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 446072136  158 IAERMYTSESLIKKKLQDE-NTCFSKILLASRMSMARRLL-ELRQIPLHTIAEKCGYSSTSYFINTFRQYYGVTPHQF 233
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRElGLSPKEYLRRLRLERARRLLlEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEY 78
 
Name Accession Description Interval E-value
PRK09940 PRK09940
transcriptional regulator YdeO; Provisional
 1-235 2.91e-35

transcriptional regulator YdeO; Provisional


Pssm-ID: 182157 [Multi-domain]  Cd Length: 253  Bit Score: 125.97  E-value: 2.91e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446072136   1 MTHVCSVILIRRSFDIYHEQHKISLHNESIVLLEKNLADDFAFCSPDTRRLDIDELTVCHYLQ--NIRqlprNLGLHSKD 78
Cdd:PRK09940   1 MSLVCSVIFIHHAFNANILDKDYAFSDGEILMVDNAVRTHFEPYERHFKEIGFNENTIKKYLQctNIQ----TVTVPVPA 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446072136  79 RLLINQSPPMPLVTAIFDSFNESGVNSPILSNMLYLSCLSMFSHKKELIPLLFNSISTVSGKVERLISFDIAKRWYLRDI 158
Cdd:PRK09940  77 KFLRASNVPTGLLNEMIAYLNSEERNHHNFSELLLFSCLSIFAACKGFITLLTNGVLSVSGKVRNIVNMKLAHPWKLKDI 156

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 446072136 159 AERMYTSESLIKKKLQDENTCFSKILLASRMSMARRLLELrQIPLHTIAEKCGYSSTSYFINTFRQYYGVTPHQFAQ 235
Cdd:PRK09940 157 CDCLYISESLLKKKLKQEQTTFSQILLDARMQHAKNLIRV-EGSVNKIAEQCGYASTSYFIYAFRKHFGNSPKRVSK 232
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
152-233 6.86e-24

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 91.08  E-value: 6.86e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446072136   152 RWYLRDIAERMYTSESLIKKKLQDE-NTCFSKILLASRMSMARRLLELRQIPLHTIAEKCGYSSTSYFINTFRQYYGVTP 230
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKEtGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ...
gi 446072136   231 HQF 233
Cdd:smart00342  81 SEY 83
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 52-238 3.09e-23

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 94.99  E-value: 3.09e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446072136  52 DIDELTVCHYLQNIRQLPRN-------------LGLHSKDR----LLINQSPPMPLVTAIFDSFNESGVN--SPILSNML 112
Cdd:PRK09978  38 DASQIRVDKCVENFVLVSRDtlslflpmlkeeaLNLHAHKKvsslLVHHCSRDIPVFQEVAQLSQNKNLRyaEMLRKRAL 117

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446072136 113 YLSCLSMFSHKKELIPLLFNSIS-TVSGKVERLISFDIAKRWYLRDIAERMYTSESLIKKKLQDENTCFSKILLASRMSM 191
Cdd:PRK09978 118 IFALLSVFLEDEHFIPLLLNVLQpNMRTRVCTVINNNIAHEWTLARIASELLMSPSLLKKKLREEETSYSQLLTECRMQR 197

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|.
gi 446072136 192 ARRLLELRQIPLHTIAEKCGYSSTSYFINTFRQYYGVTPHQF----AQHSP 238
Cdd:PRK09978 198 ALQLIVIHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTPTEYqersAQGLP 248
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
 93-233 3.69e-22

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 92.75  E-value: 3.69e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446072136  93 AIFDSFNESGVNSPILSNMLYLSCLSMFSHKKELIPLLFNSIS-TVSGKVERLISFDIAKRWYLRDIAERMYTSESLIKK 171
Cdd:PRK15185 162 GCSNCNNKSCIENEELIPYFLLFLLTAFLRLPESYEIILSSAQiTLKERVYNIISSSPSRQWKLTDVADHIFMSTSTLKR 241

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 446072136 172 KLQDENTCFSKILLASRMSMARRLLELRQIPLHTIAEKCGYSSTSYFINTFRQYYGVTPHQF 233
Cdd:PRK15185 242 KLAEEGTSFSDIYLSARMNQAAKLLRIGNHNVNAVALKCGYDSTSYFIQCFKKYFKTTPSTF 303
PRK15186 PRK15186
AraC family transcriptional regulator; Provisional
 117-233 2.52e-18

AraC family transcriptional regulator; Provisional


Pssm-ID: 185108 [Multi-domain]  Cd Length: 291  Bit Score: 81.65  E-value: 2.52e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446072136 117 LSMFSHKKELIPLLFN-SISTVSGKVERLISFDIAKRWYLRDIAERMYTSESLIKKKLQDENTCFSKILLASRMSMARRL 195
Cdd:PRK15186 161 LSEFIYEPEAFALFRElSQNTLAENIYNIIISDISRKWALKDISDSLYMSCSTLKRKLKQENTSFSEVYLNARMNKATKL 240

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 446072136 196 LELRQIPLHTIAEKCGYSSTSYFINTFRQYYGVTPHQF 233
Cdd:PRK15186 241 LRNSEYNITRVAYMCGYDSASYFTCVFKKHFKTTPSEF 278
PRK15044 PRK15044
transcriptional regulator SirC; Provisional
 110-233 5.96e-14

transcriptional regulator SirC; Provisional


Pssm-ID: 185004 [Multi-domain]  Cd Length: 295  Bit Score: 69.68  E-value: 5.96e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446072136 110 NMLYLscLSMFSHKKELIPLLFNSIS-TVSGKVERLISFDIAKRWYLRDIAERMYTSESLIKKKLQDENTCFSKILLASR 188
Cdd:PRK15044 167 SLMYL--ISAFVRKPGGFDFLERAIKiTTKEKVYNIIISDLTRKWSQAEVAGKLFMSVSSLKRKLAAEEVSFSKIYLDAR 244

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 446072136 189 MSMARRLLELRQIPLHTIAEKCGYSSTSYFINTFRQYYGVTPHQF 233
Cdd:PRK15044 245 MNQAIKLLRMGAGNISQVATMCGYDTPSYFIAIFKRHFKITPLSF 289
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
155-236 1.79e-12

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 65.19  E-value: 1.79e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446072136 155 LRDIAERMYTSESLIKKKLQDE-NTCFSKILLASRMSMARRLLELRQIPLHTIAEKCGYSSTSYFINTFRQYYGVTPHQF 233
Cdd:COG2207  171 LEELARELGLSPRTLSRLFKEEtGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEY 250


                 ...
gi 446072136 234 AQH 236
Cdd:COG2207  251 RKR 253
HTH_18 pfam12833
Helix-turn-helix domain;
158-233 7.67e-11

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 56.83  E-value: 7.67e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 446072136  158 IAERMYTSESLIKKKLQDE-NTCFSKILLASRMSMARRLL-ELRQIPLHTIAEKCGYSSTSYFINTFRQYYGVTPHQF 233
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRElGLSPKEYLRRLRLERARRLLlEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEY 78
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 184-230 2.43e-09

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: 56.32  E-value: 2.43e-09
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 446072136 184 LLASRMSMARRLLELRQIPLHTIAEKCGYSSTSYFINTFRQYYGVTP 230
Cdd:COG4977  259 LQRLRLERARRLLETTDLSIEEIAAACGFGSASHFRRAFRRRFGVSP 305
ftrA PRK09393
transcriptional activator FtrA; Provisional
 184-233 4.66e-07

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 49.58  E-value: 4.66e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 446072136 184 LLASRMSMARRLLELRQIPLHTIAEKCGYSSTSYFINTFRQYYGVTPHQF 233
Cdd:PRK09393 267 LLRERLARARDLLESSALSIDQIAERAGFGSEESLRHHFRRRAATSPAAY 316
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 143-240 7.58e-07

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: 49.28  E-value: 7.58e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446072136 143 RLISFDIAKRWYLRDIAERMYTSES----LIKKKLQdenTCFSKILLASRMSMARRLLElRQIPLHTIAEKCGYSSTSYF 218
Cdd:COG2169   91 RLIEAGAEDRPSLEDLAARLGLSPRhlrrLFKAHTG---VTPKAYARARRLLRARQLLQ-TGLSVTDAAYAAGFGSLSRF 166

                         90       100
                 ....*....|....*....|..
gi 446072136 219 INTFRQYYGVTPHQFAQHSPGT 240
Cdd:COG2169  167 YEAFKKLLGMTPSAYRRGGAGA 188
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 206-233 2.94e-05

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: 40.21  E-value: 2.94e-05
                          10        20
                  ....*....|....*....|....*...
gi 446072136  206 IAEKCGYSStSYFINTFRQYYGVTPHQF 233
Cdd:pfam00165  14 IADELGFSR-SYFSRLFKKYTGVTPSQY 40
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
188-233 6.08e-04

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 40.34  E-value: 6.08e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 446072136 188 RMSMARRLLELRQIPLHTIAEKCGYSSTSYFINTFRQYYGVTPHQF 233
Cdd:PRK10572 236 RISRAKLLLQTTRMPIATIGRNVGYDDQLYFSRVFKKCTGASPSEF 281
PRK10371 PRK10371
transcriptional regulator MelR;
186-233 3.35e-03

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 37.88  E-value: 3.35e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 446072136 186 ASRMSMARRLLELRQIPLHTIAEKCGYSSTSYFINTFRQYYGVTPHQF 233
Cdd:PRK10371 242 AMRINHVRALLSDTDKSILDIALTAGFRSSSRFYSTFGKYVGMSPQQY 289
PRK10296 PRK10296
DNA-binding transcriptional regulator ChbR; Provisional
 188-236 5.62e-03

DNA-binding transcriptional regulator ChbR; Provisional


Pssm-ID: 182362 [Multi-domain]  Cd Length: 278  Bit Score: 37.04  E-value: 5.62e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 446072136 188 RMSMARRLLELRQIPLHTIAEKCGYSSTSYFINTFRQYYGVTPHQFAQH 236
Cdd:PRK10296 225 RINFAKKQLEMTNYSVTDIAFEAGYSSPSLFIKTFKKLTSFTPGSYRKK 273
 
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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