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Conserved domains on  [gi|1805558898|gb|QHU42577|]
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yersiniabactin transcriptional regulator YbtA (plasmid) [Klebsiella pneumoniae]

Protein Classification

helix-turn-helix transcriptional regulator( domain architecture ID 12204063)

helix-turn-helix (HTH) transcriptional regulator containing an AraC family DNA-binding HTH domain controls the expression of genes with diverse biological functions including metabolism, stress response, and virulence

CATH:  1.10.10.1310
Gene Ontology:  GO:0006355|GO:0043565|GO:0003700
PubMed:  2644244|15808743|8831795
SCOP:  4000332

Graphical summary

 Zoom to residue level

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List of domain hits

 Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
236-316 6.49e-22

helix_turn_helix, arabinose operon control protein;


:

Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 87.61  E-value: 6.49e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1805558898  236 VAELARESGLSVLKIKRGFRVLFNNSVYGLFQAERMQEARRRLANGNTSVMTVAADLGYANASHFSAAFQKQFGVTPSTF 315
Cdd:smart00342   4 LEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPSEY 83


                   .
gi 1805558898  316 K 316
Cdd:smart00342  84 R 84
 
Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
236-316 6.49e-22

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 87.61  E-value: 6.49e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1805558898  236 VAELARESGLSVLKIKRGFRVLFNNSVYGLFQAERMQEARRRLANGNTSVMTVAADLGYANASHFSAAFQKQFGVTPSTF 315
Cdd:smart00342   4 LEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPSEY 83


                   .
gi 1805558898  316 K 316
Cdd:smart00342  84 R 84
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
157-317 8.19e-21

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 89.84  E-value: 8.19e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1805558898 157 HLTAQALRHALMRMHGGFSHEQKPSTLWLQGQSLVMLSLVLDEHREDASCLSCHFNPMERQKLLRAKDLLLADLTQAPGV 236
Cdd:COG2207    92 VGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLTL 171

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1805558898 237 AELARESGLSVLKIKRGFRVLFNNSVYGLFQAERMQEARRRLANGNTSVMTVAADLGYANASHFSAAFQKQFGVTPSTFK 316
Cdd:COG2207   172 EELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYR 251


                  .
gi 1805558898 317 R 317
Cdd:COG2207   252 K 252
HTH_18 pfam12833
Helix-turn-helix domain;
239-317 5.18e-18

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 77.24  E-value: 5.18e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1805558898 239 LARESGLSVLKIKRGFRVLFNNSVYGLFQAERMQEARRRLA-NGNTSVMTVAADLGYANASHFSAAFQKQFGVTPSTFKR 317
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLeDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
230-319 1.68e-08

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 51.85  E-value: 1.68e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1805558898 230 LTQAPGVAELARESGLSVLKIKRGFRVLFNNSVYGLFQAERMQEARRRLANGNTSVMTVAADLGYANASHFSAAFQKQFG 309
Cdd:PRK10219   18 IDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQTFSRVFRRQFD 97

                          90
                  ....*....|
gi 1805558898 310 VTPSTFKRVM 319
Cdd:PRK10219   98 RTPSDYRHRL 107
 
Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
236-316 6.49e-22

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 87.61  E-value: 6.49e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1805558898  236 VAELARESGLSVLKIKRGFRVLFNNSVYGLFQAERMQEARRRLANGNTSVMTVAADLGYANASHFSAAFQKQFGVTPSTF 315
Cdd:smart00342   4 LEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPSEY 83


                   .
gi 1805558898  316 K 316
Cdd:smart00342  84 R 84
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
157-317 8.19e-21

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 89.84  E-value: 8.19e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1805558898 157 HLTAQALRHALMRMHGGFSHEQKPSTLWLQGQSLVMLSLVLDEHREDASCLSCHFNPMERQKLLRAKDLLLADLTQAPGV 236
Cdd:COG2207    92 VGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLTL 171

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1805558898 237 AELARESGLSVLKIKRGFRVLFNNSVYGLFQAERMQEARRRLANGNTSVMTVAADLGYANASHFSAAFQKQFGVTPSTFK 316
Cdd:COG2207   172 EELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYR 251


                  .
gi 1805558898 317 R 317
Cdd:COG2207   252 K 252
HTH_18 pfam12833
Helix-turn-helix domain;
239-317 5.18e-18

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 77.24  E-value: 5.18e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1805558898 239 LARESGLSVLKIKRGFRVLFNNSVYGLFQAERMQEARRRLA-NGNTSVMTVAADLGYANASHFSAAFQKQFGVTPSTFKR 317
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLeDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 195-317 2.34e-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: 80.97  E-value: 2.34e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1805558898 195 LVLDEHREDASCLSCHFNPM---ERQKLLRAKDLLLADLTQAPGVAELARESGLSVLKIKRGFRVLFNNSVYGLFQAERM 271
Cdd:COG4977   185 LVVDPRRPGGQAQFSPLLVPlghRDPRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRL 264

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 1805558898 272 QEARRRLANGNTSVMTVAADLGYANASHFSAAFQKQFGVTPSTFKR 317
Cdd:COG4977   265 ERARRLLETTDLSIEEIAAACGFGSASHFRRAFRRRFGVSPSAYRR 310
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 206-317 3.49e-11

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: 63.15  E-value: 3.49e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1805558898 206 CLSCH-----FNPMERQKLLRAKDLLLADLTQAPGVAELARESGLSVLKIKRGFRvlfnnSVYGL-----FQAERMQEAR 275
Cdd:COG2169    68 CKRCRpdlapGSPPRADLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFK-----AHTGVtpkayARARRLLRAR 142

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1805558898 276 RRLANGnTSVMTVAADLGYANASHFSAAFQKQFGVTPSTFKR 317
Cdd:COG2169   143 QLLQTG-LSVTDAAYAAGFGSLSRFYEAFKKLLGMTPSAYRR 183
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
230-319 1.68e-08

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 51.85  E-value: 1.68e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1805558898 230 LTQAPGVAELARESGLSVLKIKRGFRVLFNNSVYGLFQAERMQEARRRLANGNTSVMTVAADLGYANASHFSAAFQKQFG 309
Cdd:PRK10219   18 IDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQTFSRVFRRQFD 97

                          90
                  ....*....|
gi 1805558898 310 VTPSTFKRVM 319
Cdd:PRK10219   98 RTPSDYRHRL 107
ftrA PRK09393
transcriptional activator FtrA; Provisional
 195-317 4.13e-08

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 53.81  E-value: 4.13e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1805558898 195 LVLDEHRE--DASCLSCHFNPMERQKLLRAKDLLLADLTQAPGVAELARESGLSVLKIKRGFRVLFNNSVYGLFQAERMQ 272
Cdd:PRK09393  194 LVVPPHRDggQAQFVPRPVASRESDRLGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLA 273

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 1805558898 273 EARRRLANGNTSVMTVAADLGYANASHFSAAFQKQFGVTPSTFKR 317
Cdd:PRK09393  274 RARDLLESSALSIDQIAERAGFGSEESLRHHFRRRAATSPAAYRK 318
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
 265-315 4.08e-07

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 50.76  E-value: 4.08e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1805558898 265 LFQAERMQEARRRLANGNTSVMTVAADLGYANASHFSAAFQKQFGVTPSTF 315
Cdd:PRK15185  253 IYLSARMNQAAKLLRIGNHNVNAVALKCGYDSTSYFIQCFKKYFKTTPSTF 303
PRK15044 PRK15044
transcriptional regulator SirC; Provisional
 211-319 5.92e-06

transcriptional regulator SirC; Provisional


Pssm-ID: 185004 [Multi-domain]  Cd Length: 295  Bit Score: 46.95  E-value: 5.92e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1805558898 211 FNPMERQKLLRAKD----LLLADLTQAPGVAELARESGLSVLKIKRGFRVLfNNSVYGLFQAERMQEARRRLANGNTSVM 286
Cdd:PRK15044  182 FDFLERAIKITTKEkvynIIISDLTRKWSQAEVAGKLFMSVSSLKRKLAAE-EVSFSKIYLDARMNQAIKLLRMGAGNIS 260

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1805558898 287 TVAADLGYANASHFSAAFQKQFGVTPSTFKRVM 319
Cdd:PRK15044  261 QVATMCGYDTPSYFIAIFKRHFKITPLSFMRTM 293
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 219-317 6.34e-06

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 46.95  E-value: 6.34e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1805558898 219 LLRAKDLLLADLTQaPGV--AELARESGLSVLKIKRGFrvlfnnSVYGLFQAERMQeaRRRL---------ANGNTSVMT 287
Cdd:PRK09685  199 FQKVVALIDQSIQE-EILrpEWIAGELGISVRSLYRLF------AEQGLVVAQYIR--NRRLdrcaddlrpAADDEKITS 269

                          90       100       110
                  ....*....|....*....|....*....|
gi 1805558898 288 VAADLGYANASHFSAAFQKQFGVTPSTFKR 317
Cdd:PRK09685  270 IAYKWGFSDSSHFSTAFKQRFGVSPGEYRR 299
PRK15186 PRK15186
AraC family transcriptional regulator; Provisional
 224-315 2.04e-05

AraC family transcriptional regulator; Provisional


Pssm-ID: 185108 [Multi-domain]  Cd Length: 291  Bit Score: 45.44  E-value: 2.04e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1805558898 224 DLLLADLTQAPGVAELARESGLSVLKIKRGFRVLfNNSVYGLFQAERMQEARRRLANGNTSVMTVAADLGYANASHFSAA 303
Cdd:PRK15186  188 NIIISDISRKWALKDISDSLYMSCSTLKRKLKQE-NTSFSEVYLNARMNKATKLLRNSEYNITRVAYMCGYDSASYFTCV 266

                          90
                  ....*....|..
gi 1805558898 304 FQKQFGVTPSTF 315
Cdd:PRK15186  267 FKKHFKTTPSEF 278
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
212-317 4.79e-05

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 44.19  E-value: 4.79e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1805558898 212 NPMERQKLLRAKDLLLADLTQAPGVAELARESGLSVLKIKRGFRVLFNNSVYGLFQAERMQEARRRLANGNTSVMTVAAD 291
Cdd:PRK10572  178 HPPMDPRVREACQYISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRN 257

                          90       100
                  ....*....|....*....|....*.
gi 1805558898 292 LGYANASHFSAAFQKQFGVTPSTFKR 317
Cdd:PRK10572  258 VGYDDQLYFSRVFKKCTGASPSEFRA 283
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
270-312 3.41e-04

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 41.59  E-value: 3.41e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 1805558898 270 RMQEARRRLANGNTSVMTVAADLGYANASHFSAAFQKQFGVTP 312
Cdd:PRK13503  224 RLLKARHLLRHSDASVTDIAYRCGFGDSNHFSTLFRREFSWSP 266
PRK15340 PRK15340
AraC family transcriptional regulator InvF;
226-312 3.15e-03

AraC family transcriptional regulator InvF;


Pssm-ID: 185240  Cd Length: 216  Bit Score: 38.42  E-value: 3.15e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1805558898 226 LLADLTQAPGVAELARESGLSVLKIKRGFRVLFNNSVYGLFQAERMQEARRRLANGNTSVMTVAADLGYANASHFSAAFQ 305
Cdd:PRK15340  118 LLAQSTSGNTMRMLGEDYGVSYTHFRRLCSRALGGKAKSELRNWRMAQSLLNSVEGHENITQLAVNHGYSSPSHFSSEIK 197


                  ....*..
gi 1805558898 306 KQFGVTP 312
Cdd:PRK15340  198 ELIGVSP 204
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 270-316 3.17e-03

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 38.75  E-value: 3.17e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1805558898 270 RMQEARRRLANGNTSVMTVAADLGYANASHFSAAFQKQFGVTPSTFK 316
Cdd:PRK09978  194 RMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTPTEYQ 240
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 282-313 3.38e-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: 34.82  E-value: 3.38e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1805558898 282 NTSVMTVAADLGYaNASHFSAAFQKQFGVTPS 313
Cdd:pfam00165   8 NLTIADIADELGF-SRSYFSRLFKKYTGVTPS 38
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
178-317 3.69e-03

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 38.35  E-value: 3.69e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1805558898 178 QKPSTLWLQgqslvmLSLVLDEHREDASclSCHFNPmERQKLLRAKDLLLADLTQAPGVAELARESGLSVLKIKRGFRVL 257
Cdd:PRK13501  146 QLTEVLLLQ------LAIVLKRHRYRAE--QAHLLP-DGEQLDLIMSALQQSLGAYFDMADFCHKNQLVERSLKQLFRQQ 216

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1805558898 258 FNNSVYGLFQAERMQEARRRLANGNTSVMTVAADLGYANASHFSAAFQKQFGVTPSTFKR 317
Cdd:PRK13501  217 TGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFSAVFTREAGMTPRDYRQ 276
 
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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