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Conserved domains on  [gi|1827626560|ref|WP_167364061|]
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AraC family transcriptional regulator [Rhizobium mongolense]

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
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
87-207 1.09e-17

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


:

Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 79.44  E-value: 1.09e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827626560  87 PADLEHDPRRDDKLNQEIVDRLDKLMADTKLFRDESLSLDRLARKLGEPSRQISMAVNSLRAMNVPQYVNTFRIADACDL 166
Cdd:COG2207   133 ALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRL 212

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1827626560 167 LETTNESITEIIYKTGFTTKSNFHREFQRITGYSPGAWRKR 207
Cdd:COG2207   213 LAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKR 253
 
Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
87-207 1.09e-17

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 79.44  E-value: 1.09e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827626560  87 PADLEHDPRRDDKLNQEIVDRLDKLMADTKLFRDESLSLDRLARKLGEPSRQISMAVNSLRAMNVPQYVNTFRIADACDL 166
Cdd:COG2207   133 ALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRL 212

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1827626560 167 LETTNESITEIIYKTGFTTKSNFHREFQRITGYSPGAWRKR 207
Cdd:COG2207   213 LAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKR 253
HTH_18 pfam12833
Helix-turn-helix domain;
128-207 5.15e-16

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 70.31  E-value: 5.15e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827626560 128 LARKLGEPSRQISMAVNSLRAMNVPQYVNTFRIADACDLL-ETTNESITEIIYKTGFTTKSNFHREFQRITGYSPGAWRK 206
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLlEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 1827626560 207 R 207
Cdd:pfam12833  81 R 81
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
123-205 8.17e-15

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 67.19  E-value: 8.17e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827626560  123 LSLDRLARKLGEPSRQISMAVNSLRAMNVPQYVNTFRIADACDLLETTNESITEIIYKTGFTTKSNFHREFQRITGYSPG 202
Cdd:smart00342   2 LTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPS 81


                   ...
gi 1827626560  203 AWR 205
Cdd:smart00342  82 EYR 84
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 119-209 1.35e-08

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 53.88  E-value: 1.35e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827626560 119 RDESLSLDRLARKLGepsrqisMAVNSLRAM------NVPQYVNTFRIADACDLLET--TNESITEIIYKTGFTTKSNFH 190
Cdd:PRK09685  211 QEEILRPEWIAGELG-------ISVRSLYRLfaeqglVVAQYIRNRRLDRCADDLRPaaDDEKITSIAYKWGFSDSSHFS 283

                          90
                  ....*....|....*....
gi 1827626560 191 REFQRITGYSPGAWRKRSL 209
Cdd:PRK09685  284 TAFKQRFGVSPGEYRRKFR 302
 
Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
87-207 1.09e-17

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 79.44  E-value: 1.09e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827626560  87 PADLEHDPRRDDKLNQEIVDRLDKLMADTKLFRDESLSLDRLARKLGEPSRQISMAVNSLRAMNVPQYVNTFRIADACDL 166
Cdd:COG2207   133 ALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRL 212

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1827626560 167 LETTNESITEIIYKTGFTTKSNFHREFQRITGYSPGAWRKR 207
Cdd:COG2207   213 LAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKR 253
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 92-207 2.88e-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: 79.05  E-value: 2.88e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827626560  92 HDPRRDDKLNQEIVDRLDKLMADTKLFR---------DESLSLDRLARKLGEPSRQIS----MAVNslraMNVPQYVNTF 158
Cdd:COG4977   187 VDPRRPGGQAQFSPLLVPLGHRDPRLARaqawmeanlEEPLSVDELARRAGMSPRTLErrfrAATG----TTPARYLQRL 262

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1827626560 159 RIADACDLLETTNESITEIIYKTGFTTKSNFHREFQRITGYSPGAWRKR 207
Cdd:COG4977   263 RLERARRLLETTDLSIEEIAAACGFGSASHFRRAFRRRFGVSPSAYRRR 311
HTH_18 pfam12833
Helix-turn-helix domain;
128-207 5.15e-16

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 70.31  E-value: 5.15e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827626560 128 LARKLGEPSRQISMAVNSLRAMNVPQYVNTFRIADACDLL-ETTNESITEIIYKTGFTTKSNFHREFQRITGYSPGAWRK 206
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLlEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 1827626560 207 R 207
Cdd:pfam12833  81 R 81
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
123-205 8.17e-15

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 67.19  E-value: 8.17e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827626560  123 LSLDRLARKLGEPSRQISMAVNSLRAMNVPQYVNTFRIADACDLLETTNESITEIIYKTGFTTKSNFHREFQRITGYSPG 202
Cdd:smart00342   2 LTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPS 81


                   ...
gi 1827626560  203 AWR 205
Cdd:smart00342  82 EYR 84
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 101-207 1.29e-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: 60.07  E-value: 1.29e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827626560 101 NQEIVDRLDKLMADTklfRDESLSLDRLARKLGEPSRQISMAVnsLRAMNV-P-QYVNTFRIADACDLLETtNESITEII 178
Cdd:COG2169    82 RADLVARACRLIEAG---AEDRPSLEDLAARLGLSPRHLRRLF--KAHTGVtPkAYARARRLLRARQLLQT-GLSVTDAA 155

                          90       100
                  ....*....|....*....|....*....
gi 1827626560 179 YKTGFTTKSNFHREFQRITGYSPGAWRKR 207
Cdd:COG2169   156 YAAGFGSLSRFYEAFKKLLGMTPSAYRRG 184
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 119-209 1.35e-08

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 53.88  E-value: 1.35e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827626560 119 RDESLSLDRLARKLGepsrqisMAVNSLRAM------NVPQYVNTFRIADACDLLET--TNESITEIIYKTGFTTKSNFH 190
Cdd:PRK09685  211 QEEILRPEWIAGELG-------ISVRSLYRLfaeqglVVAQYIRNRRLDRCADDLRPaaDDEKITSIAYKWGFSDSSHFS 283

                          90
                  ....*....|....*....
gi 1827626560 191 REFQRITGYSPGAWRKRSL 209
Cdd:PRK09685  284 TAFKQRFGVSPGEYRRKFR 302
PRK10296 PRK10296
DNA-binding transcriptional regulator ChbR; Provisional
 153-207 4.95e-08

DNA-binding transcriptional regulator ChbR; Provisional


Pssm-ID: 182362 [Multi-domain]  Cd Length: 278  Bit Score: 52.07  E-value: 4.95e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1827626560 153 QYVNTFRIADACDLLETTNESITEIIYKTGFTTKSNFHREFQRITGYSPGAWRKR 207
Cdd:PRK10296  219 QIINEIRINFAKKQLEMTNYSVTDIAFEAGYSSPSLFIKTFKKLTSFTPGSYRKK 273
PRK10371 PRK10371
transcriptional regulator MelR;
120-208 4.52e-07

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 49.43  E-value: 4.52e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827626560 120 DESLSLDRLARKLGEPSRQISMAVNSLRAMNVPQYVNTFRIADACDLLETTNESITEIIYKTGFTTKSNFHREFQRITGY 199
Cdd:PRK10371  205 DQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLSDTDKSILDIALTAGFRSSSRFYSTFGKYVGM 284


                  ....*....
gi 1827626560 200 SPGAWRKRS 208
Cdd:PRK10371  285 SPQQYRKLS 293
ftrA PRK09393
transcriptional activator FtrA; Provisional
 159-207 2.24e-06

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 47.65  E-value: 2.24e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1827626560 159 RIADACDLLETTNESITEIIYKTGFTTKSNFHREFQRITGYSPGAWRKR 207
Cdd:PRK09393  271 RLARARDLLESSALSIDQIAERAGFGSEESLRHHFRRRAATSPAAYRKR 319
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
108-208 1.15e-05

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 45.43  E-value: 1.15e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827626560 108 LDKLMADTKLFRDESLSLDRLARKLGEPSRQISMAVNSLRAMNVPQYVNTFRIADACDLLETTNESITEIIYKTGFTTKS 187
Cdd:PRK13502  178 LDKLITALANSLECPFALDAFCQQEQCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQCGFEDSN 257

                          90       100
                  ....*....|....*....|.
gi 1827626560 188 NFHREFQRITGYSPGAWRKRS 208
Cdd:PRK13502  258 YFSVVFTRETGMTPSQWRHLS 278
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
121-208 1.83e-05

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 44.58  E-value: 1.83e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827626560 121 ESLSLDRLARKLG-EPSRQISMAVNSLrAMNVPQYVNTFRIADACDLLETTNESITEIIYKTGFTTKSNFHREFQRITGY 199
Cdd:PRK10572  198 SEFDIESVAQHVClSPSRLAHLFRQQL-GISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQLYFSRVFKKCTGA 276


                  ....*....
gi 1827626560 200 SPGAWRKRS 208
Cdd:PRK10572  277 SPSEFRARC 285
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
122-213 2.92e-05

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 43.90  E-value: 2.92e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827626560 122 SLSLDRLARKLgepSRQISMAvnslramnvPQ-YVNTFRIADACDLLETTNESITEIIYKTGFTTKSNFHREFQRITGYS 200
Cdd:PRK13503  198 SLSLRTLHRQL---KQQTGLT---------PQrYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDSNHFSTLFRREFSWS 265

                          90
                  ....*....|...
gi 1827626560 201 PGAWRKRSLVPDQ 213
Cdd:PRK13503  266 PRDIRQGRDGFLQ 278
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 168-206 8.98e-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: 38.67  E-value: 8.98e-05
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 1827626560 168 ETTNESITEIIYKTGFTTkSNFHREFQRITGYSPGAWRK 206
Cdd:pfam00165   5 LSTNLTIADIADELGFSR-SYFSRLFKKYTGVTPSQYRH 42
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
108-205 1.23e-04

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 42.40  E-value: 1.23e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827626560 108 LDKLMADTKLFRDESLSLDRLARKLGEPSRQISMAVNSLRAMNVPQYVNTFRIADACDLLETTNESITEIIYKTGFTTKS 187
Cdd:PRK13500  208 LDKLITRLAASLKSPFALDKFCDEASCSERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQHSRLLISDISTECGFEDSN 287

                          90
                  ....*....|....*...
gi 1827626560 188 NFHREFQRITGYSPGAWR 205
Cdd:PRK13500  288 YFSVVFTRETGMTPSQWR 305
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
149-207 3.55e-04

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 40.66  E-value: 3.55e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1827626560 149 MNVPQYVNTFRIADACDLLETTNESITEIIYKTGFTTKSNFHREFQRITGYSPGAWRKR 207
Cdd:PRK13501  219 MSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFSAVFTREAGMTPRDYRQR 277
PRK15435 PRK15435
bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;
152-226 3.69e-04

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


Pssm-ID: 185333 [Multi-domain]  Cd Length: 353  Bit Score: 40.93  E-value: 3.69e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1827626560 152 PQYVNTFRIADACDLLET----TNESITEIIYKTGFttksNFHREFQRITGYSPGAWrkrslvpdQKGIRAKmdRLRVA 226
Cdd:PRK15435   79 PQQHRLDKITHACRLLEQetpvTLEALADQVAMSPF----HLHRLFKATTGMTPKAW--------QQAWRAR--RLREA 143
 
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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