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Conserved domains on  [gi|999847250|gb|AMK98621|]
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transcriptional regulator [Escherichia coli str. K-12 substr. MG1655]

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

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List of domain hits

 Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
178-260 2.55e-23

helix_turn_helix, arabinose operon control protein;


:

Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 90.30  E-value: 2.55e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 999847250   178 KWTANKVARYLYISVSTLHRRLASE-GVSFQSILDDVRLNNALSAIQTTVKPISEIARENGYKCPSRFTERFHNRFNITP 256
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKEtGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 999847250   257 REIR 260
Cdd:smart00342  81 SEYR 84
 
Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
178-260 2.55e-23

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 90.30  E-value: 2.55e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 999847250   178 KWTANKVARYLYISVSTLHRRLASE-GVSFQSILDDVRLNNALSAIQTTVKPISEIARENGYKCPSRFTERFHNRFNITP 256
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKEtGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 999847250   257 REIR 260
Cdd:smart00342  81 SEYR 84
HTH_18 pfam12833
Helix-turn-helix domain;
184-262 4.46e-16

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 71.08  E-value: 4.46e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 999847250  184 VARYLYISVSTLHRRLASE-GVSFQSILDDVRLNNALSA-IQTTVKPISEIARENGYKCPSRFTERFHNRFNITPREIRK 261
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRElGLSPKEYLRRLRLERARRLlLEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 999847250  262 A 262
Cdd:pfam12833  81 R 81
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
 154-256 7.01e-16

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 75.80  E-value: 7.01e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 999847250 154 LLLSYSKQSLISRCYNLLLSEPGTKWTANKVARYLYISVSTLHRRLASEGVSFQSILDDVRLNNALSAIQTTVKPISEIA 233
Cdd:PRK15185 198 IILSSAQITLKERVYNIISSSPSRQWKLTDVADHIFMSTSTLKRKLAEEGTSFSDIYLSARMNQAAKLLRIGNHNVNAVA 277

                         90       100
                 ....*....|....*....|...
gi 999847250 234 RENGYKCPSRFTERFHNRFNITP 256
Cdd:PRK15185 278 LKCGYDSTSYFIQCFKKYFKTTP 300
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
180-264 1.04e-15

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 74.82  E-value: 1.04e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 999847250 180 TANKVARYLYISVSTLHRRLASE-GVSFQSILDDVRLNNALSAIQTTVKPISEIARENGYKCPSRFTERFHNRFNITPRE 258
Cdd:COG2207  170 TLEELARELGLSPRTLSRLFKEEtGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSE 249


                 ....*.
gi 999847250 259 IRKASR 264
Cdd:COG2207  250 YRKRLR 255
 
Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
178-260 2.55e-23

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 90.30  E-value: 2.55e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 999847250   178 KWTANKVARYLYISVSTLHRRLASE-GVSFQSILDDVRLNNALSAIQTTVKPISEIARENGYKCPSRFTERFHNRFNITP 256
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKEtGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 999847250   257 REIR 260
Cdd:smart00342  81 SEYR 84
HTH_18 pfam12833
Helix-turn-helix domain;
184-262 4.46e-16

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 71.08  E-value: 4.46e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 999847250  184 VARYLYISVSTLHRRLASE-GVSFQSILDDVRLNNALSA-IQTTVKPISEIARENGYKCPSRFTERFHNRFNITPREIRK 261
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRElGLSPKEYLRRLRLERARRLlLEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 999847250  262 A 262
Cdd:pfam12833  81 R 81
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
 154-256 7.01e-16

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 75.80  E-value: 7.01e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 999847250 154 LLLSYSKQSLISRCYNLLLSEPGTKWTANKVARYLYISVSTLHRRLASEGVSFQSILDDVRLNNALSAIQTTVKPISEIA 233
Cdd:PRK15185 198 IILSSAQITLKERVYNIISSSPSRQWKLTDVADHIFMSTSTLKRKLAEEGTSFSDIYLSARMNQAAKLLRIGNHNVNAVA 277

                         90       100
                 ....*....|....*....|...
gi 999847250 234 RENGYKCPSRFTERFHNRFNITP 256
Cdd:PRK15185 278 LKCGYDSTSYFIQCFKKYFKTTP 300
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
180-264 1.04e-15

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 74.82  E-value: 1.04e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 999847250 180 TANKVARYLYISVSTLHRRLASE-GVSFQSILDDVRLNNALSAIQTTVKPISEIARENGYKCPSRFTERFHNRFNITPRE 258
Cdd:COG2207  170 TLEELARELGLSPRTLSRLFKEEtGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSE 249


                 ....*.
gi 999847250 259 IRKASR 264
Cdd:COG2207  250 YRKRLR 255
PRK15044 PRK15044
transcriptional regulator SirC; Provisional
 166-256 1.42e-14

transcriptional regulator SirC; Provisional


Pssm-ID: 185004 [Multi-domain]  Cd Length: 295  Bit Score: 71.99  E-value: 1.42e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 999847250 166 RCYNLLLSEPGTKWTANKVARYLYISVSTLHRRLASEGVSFQSILDDVRLNNALSAIQTTVKPISEIARENGYKCPSRFT 245
Cdd:PRK15044 196 KVYNIIISDLTRKWSQAEVAGKLFMSVSSLKRKLAAEEVSFSKIYLDARMNQAIKLLRMGAGNISQVATMCGYDTPSYFI 275

                         90
                 ....*....|.
gi 999847250 246 ERFHNRFNITP 256
Cdd:PRK15044 276 AIFKRHFKITP 286
PRK15186 PRK15186
AraC family transcriptional regulator; Provisional
 154-258 5.40e-12

AraC family transcriptional regulator; Provisional


Pssm-ID: 185108 [Multi-domain]  Cd Length: 291  Bit Score: 64.32  E-value: 5.40e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 999847250 154 LLLSYSKQSLISRCYNLLLSEPGTKWTANKVARYLYISVSTLHRRLASEGVSFQSILDDVRLNNALSAIQTTVKPISEIA 233
Cdd:PRK15186 173 LFRELSQNTLAENIYNIIISDISRKWALKDISDSLYMSCSTLKRKLKQENTSFSEVYLNARMNKATKLLRNSEYNITRVA 252

                         90       100
                 ....*....|....*....|....*
gi 999847250 234 RENGYKCPSRFTERFHNRFNITPRE 258
Cdd:PRK15186 253 YMCGYDSASYFTCVFKKHFKTTPSE 277
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 170-264 7.26e-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: 61.61  E-value: 7.26e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 999847250 170 LLLSEPGTKWTANKVARYLYISVSTLHRRLASE-GVSFQSILDDVRLNNALSAIQTTvKPISEIARENGYKCPSRFTERF 248
Cdd:COG2169   92 LIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHtGVTPKAYARARRLLRARQLLQTG-LSVTDAAYAAGFGSLSRFYEAF 170

                         90
                 ....*....|....*.
gi 999847250 249 HNRFNITPREIRKASR 264
Cdd:COG2169  171 KKLLGMTPSAYRRGGA 186
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 162-264 9.30e-10

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: 57.86  E-value: 9.30e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 999847250 162 SLISRCYNLLLSEPGTKWTANKVARYLYISVSTLHRRLASE-GVSFQSILDDVRLNNALSAIQTTVKPISEIARENGYKC 240
Cdd:COG4977  210 PRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAAtGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGS 289

                         90       100
                 ....*....|....*....|....
gi 999847250 241 PSRFTERFHNRFNITPREIRKASR 264
Cdd:COG4977  290 ASHFRRAFRRRFGVSPSAYRRRFR 313
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 121-265 1.66e-07

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 51.08  E-value: 1.66e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 999847250 121 QLKTSVSRGFSTKIQEHLAMGVLLSLGVNHVNH--LLLSYSKQSLISRCYNLLLSEPGTKWTANKVARYLYISVSTLHRR 198
Cdd:PRK09978  99 QLSQNKNLRYAEMLRKRALIFALLSVFLEDEHFipLLLNVLQPNMRTRVCTVINNNIAHEWTLARIASELLMSPSLLKKK 178

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 999847250 199 LASEGVSFQSILDDVRLNNALSAIQTTVKPISEIARENGYKCPSRFTERFHNRFNITPREIRKASRE 265
Cdd:PRK09978 179 LREEETSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTPTEYQERSAQ 245
PRK09940 PRK09940
transcriptional regulator YdeO; Provisional
 169-264 2.19e-06

transcriptional regulator YdeO; Provisional


Pssm-ID: 182157 [Multi-domain]  Cd Length: 253  Bit Score: 47.77  E-value: 2.19e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 999847250 169 NLLLSEPgtkWTANKVARYLYISVSTLHRRLASEGVSFQSILDDVRLNNALSAIQTTvKPISEIARENGYKCPSRFTERF 248
Cdd:PRK09940 144 NMKLAHP---WKLKDICDCLYISESLLKKKLKQEQTTFSQILLDARMQHAKNLIRVE-GSVNKIAEQCGYASTSYFIYAF 219

                         90
                 ....*....|....*.
gi 999847250 249 HNRFNITPREIRKASR 264
Cdd:PRK09940 220 RKHFGNSPKRVSKEYR 235
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
184-265 2.76e-05

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 44.58  E-value: 2.76e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 999847250 184 VARYLYISVStlhrRLA-----SEGVSFQSILDDVRLNNALSAIQTTVKPISEIARENGYKCPSRFTERFHNRFNITPRE 258
Cdd:PRK10572 205 VAQHVCLSPS----RLAhlfrqQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQLYFSRVFKKCTGASPSE 280


                 ....*..
gi 999847250 259 IRKASRE 265
Cdd:PRK10572 281 FRARCEE 287
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
190-260 5.79e-05

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 43.51  E-value: 5.79e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 999847250 190 ISVSTLHRRLASE-GVSFQSILDDVRLNNALSAIQTTVKPISEIARENGYKCPSRFTERFHNRFNITPREIR 260
Cdd:PRK13503 199 LSLRTLHRQLKQQtGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDSNHFSTLFRREFSWSPRDIR 270
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 161-264 5.75e-03

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 37.32  E-value: 5.75e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 999847250 161 QSLISRcynlLLSEPGTkwTANKVARYLYISVSTLHRRLASEGVSFQSILDDVRLNNALSAIQTTVK--PISEIARENGY 238
Cdd:PRK09685 203 VALIDQ----SIQEEIL--RPEWIAGELGISVRSLYRLFAEQGLVVAQYIRNRRLDRCADDLRPAADdeKITSIAYKWGF 276

                         90       100
                 ....*....|....*....|....*.
gi 999847250 239 KCPSRFTERFHNRFNITPREIRKASR 264
Cdd:PRK09685 277 SDSSHFSTAFKQRFGVSPGEYRRKFR 302
 
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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