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Conserved domains on  [gi|447139804|ref|WP_001217060|]
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MULTISPECIES: DNA-binding transcriptional activator AdiY [Enterobacteriaceae]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK09978 super family cl31382
DNA-binding transcriptional regulator GadX; Provisional
 55-243 1.90e-44

DNA-binding transcriptional regulator GadX; Provisional


The actual alignment was detected with superfamily member PRK09978:

Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 150.85  E-value: 1.90e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447139804  55 VAHISHDIIKDYLRFLNKDLSQIPVWQRSATPILTLPCLTPDVFRVAAQHSMMPAETESEKERTRALLFTVLSRFLDSKK 134
Cdd:PRK09978  51 FVLVSRDTLSLFLPMLKEEALNLHAHKKVSSLLVHHCSRDIPVFQEVAQLSQNKNLRYAEMLRKRALIFALLSVFLEDEH 130

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447139804 135 FVSLMMYMLRNCVSDSVYQIIESDIHKDWNLSMVASCLCLSPSLLKKKLKSENTSYSQIITTCRMRYAVNELMMDGKNIS 214
Cdd:PRK09978 131 FIPLLLNVLQPNMRTRVCTVINNNIAHEWTLARIASELLMSPSLLKKKLREEETSYSQLLTECRMQRALQLIVIHGFSIK 210

                        170       180
                 ....*....|....*....|....*....
gi 447139804 215 QVSQSCGYNSTSYFISVFKDFYGMTPLHY 243
Cdd:PRK09978 211 RVAVSCGYHSVSYFIYVFRNYYGMTPTEY 239
 
Name Accession Description Interval E-value
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 55-243 1.90e-44

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 150.85  E-value: 1.90e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447139804  55 VAHISHDIIKDYLRFLNKDLSQIPVWQRSATPILTLPCLTPDVFRVAAQHSMMPAETESEKERTRALLFTVLSRFLDSKK 134
Cdd:PRK09978  51 FVLVSRDTLSLFLPMLKEEALNLHAHKKVSSLLVHHCSRDIPVFQEVAQLSQNKNLRYAEMLRKRALIFALLSVFLEDEH 130

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447139804 135 FVSLMMYMLRNCVSDSVYQIIESDIHKDWNLSMVASCLCLSPSLLKKKLKSENTSYSQIITTCRMRYAVNELMMDGKNIS 214
Cdd:PRK09978 131 FIPLLLNVLQPNMRTRVCTVINNNIAHEWTLARIASELLMSPSLLKKKLREEETSYSQLLTECRMQRALQLIVIHGFSIK 210

                        170       180
                 ....*....|....*....|....*....
gi 447139804 215 QVSQSCGYNSTSYFISVFKDFYGMTPLHY 243
Cdd:PRK09978 211 RVAVSCGYHSVSYFIYVFRNYYGMTPTEY 239
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
162-243 3.00e-26

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 97.62  E-value: 3.00e-26
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447139804   162 DWNLSMVASCLCLSPSLLKKKLKSE-NTSYSQIITTCRMRYAVNELMMDGKNISQVSQSCGYNSTSYFISVFKDFYGMTP 240
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKEtGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ...
gi 447139804   241 LHY 243
Cdd:smart00342  81 SEY 83
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
164-250 2.32e-19

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 84.45  E-value: 2.32e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447139804 164 NLSMVASCLCLSPSLLKKKLKSE-NTSYSQIITTCRMRYAVNELMMDGKNISQVSQSCGYNSTSYFISVFKDFYGMTPLH 242
Cdd:COG2207  170 TLEELARELGLSPRTLSRLFKEEtGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSE 249


                 ....*...
gi 447139804 243 YVSQHRER 250
Cdd:COG2207  250 YRKRLRAR 257
HTH_18 pfam12833
Helix-turn-helix domain;
168-243 9.04e-14

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 64.92  E-value: 9.04e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 447139804  168 VASCLCLSPSLLKKKLKSE-NTSYSQIITTCRMRYAVNELM-MDGKNISQVSQSCGYNSTSYFISVFKDFYGMTPLHY 243
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRElGLSPKEYLRRLRLERARRLLLeDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEY 78
 
Name Accession Description Interval E-value
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 55-243 1.90e-44

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 150.85  E-value: 1.90e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447139804  55 VAHISHDIIKDYLRFLNKDLSQIPVWQRSATPILTLPCLTPDVFRVAAQHSMMPAETESEKERTRALLFTVLSRFLDSKK 134
Cdd:PRK09978  51 FVLVSRDTLSLFLPMLKEEALNLHAHKKVSSLLVHHCSRDIPVFQEVAQLSQNKNLRYAEMLRKRALIFALLSVFLEDEH 130

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447139804 135 FVSLMMYMLRNCVSDSVYQIIESDIHKDWNLSMVASCLCLSPSLLKKKLKSENTSYSQIITTCRMRYAVNELMMDGKNIS 214
Cdd:PRK09978 131 FIPLLLNVLQPNMRTRVCTVINNNIAHEWTLARIASELLMSPSLLKKKLREEETSYSQLLTECRMQRALQLIVIHGFSIK 210

                        170       180
                 ....*....|....*....|....*....
gi 447139804 215 QVSQSCGYNSTSYFISVFKDFYGMTPLHY 243
Cdd:PRK09978 211 RVAVSCGYHSVSYFIYVFRNYYGMTPTEY 239
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
162-243 3.00e-26

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 97.62  E-value: 3.00e-26
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447139804   162 DWNLSMVASCLCLSPSLLKKKLKSE-NTSYSQIITTCRMRYAVNELMMDGKNISQVSQSCGYNSTSYFISVFKDFYGMTP 240
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKEtGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ...
gi 447139804   241 LHY 243
Cdd:smart00342  81 SEY 83
PRK15186 PRK15186
AraC family transcriptional regulator; Provisional
 93-245 8.78e-22

AraC family transcriptional regulator; Provisional


Pssm-ID: 185108 [Multi-domain]  Cd Length: 291  Bit Score: 91.67  E-value: 8.78e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447139804  93 LTPDVFRVAAQHSMMPAETESEK---ERTRALLFTVLSRFLDSKKFVSLMMYMLRNCVSDSVYQIIESDIHKDWNLSMVA 169
Cdd:PRK15186 125 LAPIETGVARVFNLLHSSNKSQKlsqDKKEYLIRFLLSEFIYEPEAFALFRELSQNTLAENIYNIIISDISRKWALKDIS 204

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 447139804 170 SCLCLSPSLLKKKLKSENTSYSQIITTCRMRYAVNELMMDGKNISQVSQSCGYNSTSYFISVFKDFYGMTPLHYVS 245
Cdd:PRK15186 205 DSLYMSCSTLKRKLKQENTSFSEVYLNARMNKATKLLRNSEYNITRVAYMCGYDSASYFTCVFKKHFKTTPSEFLA 280
PRK09940 PRK09940
transcriptional regulator YdeO; Provisional
 105-248 3.45e-21

transcriptional regulator YdeO; Provisional


Pssm-ID: 182157 [Multi-domain]  Cd Length: 253  Bit Score: 89.37  E-value: 3.45e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447139804 105 SMMPAETESEKERTRALLFTVLSRFLDSKKFVSLMMYMLRNcVSDSVYQIIESDIHKDWNLSMVASCLCLSPSLLKKKLK 184
Cdd:PRK09940  94 AYLNSEERNHHNFSELLLFSCLSIFAACKGFITLLTNGVLS-VSGKVRNIVNMKLAHPWKLKDICDCLYISESLLKKKLK 172

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 447139804 185 SENTSYSQIITTCRMRYAVNELMMDGkNISQVSQSCGYNSTSYFISVFKDFYGMTPLHYVSQHR 248
Cdd:PRK09940 173 QEQTTFSQILLDARMQHAKNLIRVEG-SVNKIAEQCGYASTSYFIYAFRKHFGNSPKRVSKEYR 235
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
 112-240 6.02e-21

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 89.67  E-value: 6.02e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447139804 112 ESEKERTRALLFtVLSRFLDSKKFVSLMMYMLRNCVSDSVYQIIESDIHKDWNLSMVASCLCLSPSLLKKKLKSENTSYS 191
Cdd:PRK15185 173 ENEELIPYFLLF-LLTAFLRLPESYEIILSSAQITLKERVYNIISSSPSRQWKLTDVADHIFMSTSTLKRKLAEEGTSFS 251

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 447139804 192 QIITTCRMRYAVNELMMDGKNISQVSQSCGYNSTSYFISVFKDFYGMTP 240
Cdd:PRK15185 252 DIYLSARMNQAAKLLRIGNHNVNAVALKCGYDSTSYFIQCFKKYFKTTP 300
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
164-250 2.32e-19

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 84.45  E-value: 2.32e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447139804 164 NLSMVASCLCLSPSLLKKKLKSE-NTSYSQIITTCRMRYAVNELMMDGKNISQVSQSCGYNSTSYFISVFKDFYGMTPLH 242
Cdd:COG2207  170 TLEELARELGLSPRTLSRLFKEEtGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSE 249


                 ....*...
gi 447139804 243 YVSQHRER 250
Cdd:COG2207  250 YRKRLRAR 257
PRK15044 PRK15044
transcriptional regulator SirC; Provisional
 122-244 1.06e-18

transcriptional regulator SirC; Provisional


Pssm-ID: 185004 [Multi-domain]  Cd Length: 295  Bit Score: 83.16  E-value: 1.06e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447139804 122 LFTVLSRFLDSKKFVSLMMYMLRNCVSDSVYQIIESDIHKDWNLSMVASCLCLSPSLLKKKLKSENTSYSQIITTCRMRY 201
Cdd:PRK15044 168 LMYLISAFVRKPGGFDFLERAIKITTKEKVYNIIISDLTRKWSQAEVAGKLFMSVSSLKRKLAAEEVSFSKIYLDARMNQ 247

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 447139804 202 AVNELMMDGKNISQVSQSCGYNSTSYFISVFKDFYGMTPLHYV 244
Cdd:PRK15044 248 AIKLLRMGAGNISQVATMCGYDTPSYFIAIFKRHFKITPLSFM 290
HTH_18 pfam12833
Helix-turn-helix domain;
168-243 9.04e-14

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 64.92  E-value: 9.04e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 447139804  168 VASCLCLSPSLLKKKLKSE-NTSYSQIITTCRMRYAVNELM-MDGKNISQVSQSCGYNSTSYFISVFKDFYGMTPLHY 243
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRElGLSPKEYLRRLRLERARRLLLeDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEY 78
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 153-243 6.59e-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: 49.67  E-value: 6.59e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447139804 153 QIIESDIHKDWNLSMVASCLCLSPSLLKKKLKSE-NTSYSQIITTCRMRYAVNELMmDGKNISQVSQSCGYNSTSYFISV 231
Cdd:COG2169   91 RLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHtGVTPKAYARARRLLRARQLLQ-TGLSVTDAAYAAGFGSLSRFYEA 169

                         90
                 ....*....|..
gi 447139804 232 FKDFYGMTPLHY 243
Cdd:COG2169  170 FKKLLGMTPSAY 181
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 153-253 8.41e-06

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: 45.92  E-value: 8.41e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447139804 153 QIIESDIHKDWNLSMVASCLCLSPSLLKKKLKSE-NTSYSQIITTCRMRYAVNELMMDGKNISQVSQSCGYNSTSYFISV 231
Cdd:COG4977  217 AWMEANLEEPLSVDELARRAGMSPRTLERRFRAAtGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSASHFRRA 296

                         90       100
                 ....*....|....*....|..
gi 447139804 232 FKDFYGMTPLHYVSQHRERTVA 253
Cdd:COG4977  297 FRRRFGVSPSAYRRRFRARAAA 318
PRK10296 PRK10296
DNA-binding transcriptional regulator ChbR; Provisional
 192-243 3.78e-04

DNA-binding transcriptional regulator ChbR; Provisional


Pssm-ID: 182362 [Multi-domain]  Cd Length: 278  Bit Score: 40.90  E-value: 3.78e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 447139804 192 QIITTCRMRYAVNELMMDGKNISQVSQSCGYNSTSYFISVFKDFYGMTPLHY 243
Cdd:PRK10296 219 QIINEIRINFAKKQLEMTNYSVTDIAFEAGYSSPSLFIKTFKKLTSFTPGSY 270
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 205-243 1.12e-03

Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the N-terminal arm of AraC binds to the DNA binding domain (pfam00165) and helps to hold the two DNA binding domains in a relative orientation that favours DNA looping. In the presence of arabinose, the arms bind over the arabinose on the dimerization domain, thus freeing the DNA-binding domains. The freed DNA-binding domains are then able to assume a conformation suitable for binding to the adjacent DNA sites that are utilized when AraC activates transcription, and hence AraC ceases looping the DNA when arabinose is added.


Pssm-ID: 425497 [Multi-domain]  Cd Length: 42  Bit Score: 35.98  E-value: 1.12e-03
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 447139804  205 ELMMDGKNISQVSQSCGYnSTSYFISVFKDFYGMTPLHY 243
Cdd:pfam00165   3 ENLSTNLTIADIADELGF-SRSYFSRLFKKYTGVTPSQY 40
 
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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