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Conserved domains on  [gi|751637080|ref|WP_041104802|]
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MULTISPECIES: IclR family transcriptional regulator [Micrococcus]

Protein Classification

IclR family transcriptional regulator( domain architecture ID 11444403)

IclR family transcriptional regulator functions as an activator or repressor of genes involved in primary and secondary metabolism, virulence, quorum sensing, and sporulation

CATH:  1.10.10.10|3.30.450.40
Gene Ontology:  GO:0003677|GO:0006355|GO:0003700
PubMed:  16472303|16597823

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
IclR COG1414
DNA-binding transcriptional regulator, IclR family [Transcription];
10-253 9.92e-29

DNA-binding transcriptional regulator, IclR family [Transcription];


:

Pssm-ID: 441024 [Multi-domain]  Cd Length: 253  Bit Score: 109.14  E-value: 9.92e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 751637080  10 RAALVMRLLHEAGPaGLRLSQLVQRTGLPQPTAHRLLADLAEQGAVTR--RGAAYALGDRWGPVGfEPVTPRCLIeREAS 87
Cdd:COG1414   10 RALAILEALAEAGG-GLSLSELARRLGLPKSTVHRLLATLEEEGYVERdpEGGRYRLGPRLLELG-SAALRRLDL-RRLA 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 751637080  88 RAVVQAAADELGDTVYLAARAAGGVAYLLRCDGDSPVRVfTVEVGEVKRLAAGYAGIALLAALPPERRRAEVDAVVARPP 167
Cdd:COG1414   87 RPVLEELAEETGETVHLAVLDGDEVVYVARVEGPRPVRV-SSRVGSRLPLHATASGKALLAFLPEEELEALLARAGLPRF 165

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 751637080 168 RRWNLTDDGALHDlldtLLRQMDEQGWCgGVPVVPGVAGVACGVPART-GGIPQVSLTASAAEQRMPPARVPEVAEVLRA 246
Cdd:COG1414  166 TPNTITDPAALRA----ELAEIRERGYA-VDDGELEPGVRAVAAPVFDaDGRVVAALSVSGPSSRLTEERLEELAPALRA 240


                 ....*..
gi 751637080 247 AATRLAE 253
Cdd:COG1414  241 AAREISR 247
 
Name Accession Description Interval E-value
IclR COG1414
DNA-binding transcriptional regulator, IclR family [Transcription];
10-253 9.92e-29

DNA-binding transcriptional regulator, IclR family [Transcription];


Pssm-ID: 441024 [Multi-domain]  Cd Length: 253  Bit Score: 109.14  E-value: 9.92e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 751637080  10 RAALVMRLLHEAGPaGLRLSQLVQRTGLPQPTAHRLLADLAEQGAVTR--RGAAYALGDRWGPVGfEPVTPRCLIeREAS 87
Cdd:COG1414   10 RALAILEALAEAGG-GLSLSELARRLGLPKSTVHRLLATLEEEGYVERdpEGGRYRLGPRLLELG-SAALRRLDL-RRLA 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 751637080  88 RAVVQAAADELGDTVYLAARAAGGVAYLLRCDGDSPVRVfTVEVGEVKRLAAGYAGIALLAALPPERRRAEVDAVVARPP 167
Cdd:COG1414   87 RPVLEELAEETGETVHLAVLDGDEVVYVARVEGPRPVRV-SSRVGSRLPLHATASGKALLAFLPEEELEALLARAGLPRF 165

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 751637080 168 RRWNLTDDGALHDlldtLLRQMDEQGWCgGVPVVPGVAGVACGVPART-GGIPQVSLTASAAEQRMPPARVPEVAEVLRA 246
Cdd:COG1414  166 TPNTITDPAALRA----ELAEIRERGYA-VDDGELEPGVRAVAAPVFDaDGRVVAALSVSGPSSRLTEERLEELAPALRA 240


                 ....*..
gi 751637080 247 AATRLAE 253
Cdd:COG1414  241 AAREISR 247
HTH_IclR pfam09339
IclR helix-turn-helix domain;
10-59 4.40e-08

IclR helix-turn-helix domain;


Pssm-ID: 430539 [Multi-domain]  Cd Length: 52  Bit Score: 48.56  E-value: 4.40e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 751637080   10 RAALVMRLLhEAGPAGLRLSQLVQRTGLPQPTAHRLLADLAEQGAVTRRG 59
Cdd:pfam09339   4 RALAILDAL-AEAPGPLTLTEIARRTGLPKSTAHRLLQTLVELGYVEQDP 52
pcaR_pcaU TIGR02431
beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Member of this ...
 8-195 9.97e-08

beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Member of this family are IclR-type transcriptional regulators with similar DNA binding sites, able to bind at least three different metabolites related to protocatechuate metabolism. Beta-ketoadipate is the inducer for PcaR, p-hydroxybenzoate for PobR, and protocatechuate for PcaU. [Regulatory functions, DNA interactions]


Pssm-ID: 131484 [Multi-domain]  Cd Length: 248  Bit Score: 51.49  E-value: 9.97e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 751637080    8 LPRAALVMRLLHEAGPaGLRLSQLVQRTGLPQPTAHRLLADLAEQGAVTRRGAAYALGDRWGPVGFEPVTPRCLIEreAS 87
Cdd:TIGR02431   8 LARGLAVIEAFGAERP-RLTLTDVAEATGLTRAAARRFLLTLVELGYVTSDGRLFWLTPRVLRLGYAYLSSAPLPK--VA 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 751637080   88 RAVVQAAADELGDTVYLAARAAGGVAYLLRCdgdSPVRVFTVEVGEVKRLAAgYA---GIALLAALPPERRRAEVDAVVA 164
Cdd:TIGR02431  85 QPLLERLSAQTHESCSVAVLDGDEIVYVARS---PTHRIMSVGLSVGTRLPA-YCtsmGRVLLAGLDDEELDEYLARSTL 160

                         170       180       190
                  ....*....|....*....|....*....|.
gi 751637080  165 RPPRRWNLTDDGALHDLLDtllrQMDEQGWC 195
Cdd:TIGR02431 161 QALTPRTITDRDALLAELL----AVRAQGYA 187
HTH_ICLR smart00346
helix_turn_helix isocitrate lyase regulation;
7-65 1.66e-07

helix_turn_helix isocitrate lyase regulation;


Pssm-ID: 214629 [Multi-domain]  Cd Length: 91  Bit Score: 47.96  E-value: 1.66e-07
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 751637080     7 VLPRAALVMRLLhEAGPAGLRLSQLVQRTGLPQPTAHRLLADLAEQGAVTRRGAA--YALG 65
Cdd:smart00346   3 SLERGLAVLRAL-AEEPGGLTLAELAERLGLSKSTAHRLLNTLQELGYVEQDGQNgrYRLG 62
PRK09834 PRK09834
DNA-binding transcriptional regulator;
1-57 1.69e-03

DNA-binding transcriptional regulator;


Pssm-ID: 182100 [Multi-domain]  Cd Length: 263  Bit Score: 38.82  E-value: 1.69e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 751637080   1 MTPPTGV--LPRAALVMRLLHEAGpAGLRLSQLVQRTGLPQPTAHRLLADLAEQGAVTR 57
Cdd:PRK09834   1 MTEYKTVrgLSRGLMVLRALNRLD-GGATVGLLAELTGLHRTTVRRLLETLQEEGYVRR 58
 
Name Accession Description Interval E-value
IclR COG1414
DNA-binding transcriptional regulator, IclR family [Transcription];
10-253 9.92e-29

DNA-binding transcriptional regulator, IclR family [Transcription];


Pssm-ID: 441024 [Multi-domain]  Cd Length: 253  Bit Score: 109.14  E-value: 9.92e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 751637080  10 RAALVMRLLHEAGPaGLRLSQLVQRTGLPQPTAHRLLADLAEQGAVTR--RGAAYALGDRWGPVGfEPVTPRCLIeREAS 87
Cdd:COG1414   10 RALAILEALAEAGG-GLSLSELARRLGLPKSTVHRLLATLEEEGYVERdpEGGRYRLGPRLLELG-SAALRRLDL-RRLA 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 751637080  88 RAVVQAAADELGDTVYLAARAAGGVAYLLRCDGDSPVRVfTVEVGEVKRLAAGYAGIALLAALPPERRRAEVDAVVARPP 167
Cdd:COG1414   87 RPVLEELAEETGETVHLAVLDGDEVVYVARVEGPRPVRV-SSRVGSRLPLHATASGKALLAFLPEEELEALLARAGLPRF 165

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 751637080 168 RRWNLTDDGALHDlldtLLRQMDEQGWCgGVPVVPGVAGVACGVPART-GGIPQVSLTASAAEQRMPPARVPEVAEVLRA 246
Cdd:COG1414  166 TPNTITDPAALRA----ELAEIRERGYA-VDDGELEPGVRAVAAPVFDaDGRVVAALSVSGPSSRLTEERLEELAPALRA 240


                 ....*..
gi 751637080 247 AATRLAE 253
Cdd:COG1414  241 AAREISR 247
HTH_IclR pfam09339
IclR helix-turn-helix domain;
10-59 4.40e-08

IclR helix-turn-helix domain;


Pssm-ID: 430539 [Multi-domain]  Cd Length: 52  Bit Score: 48.56  E-value: 4.40e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 751637080   10 RAALVMRLLhEAGPAGLRLSQLVQRTGLPQPTAHRLLADLAEQGAVTRRG 59
Cdd:pfam09339   4 RALAILDAL-AEAPGPLTLTEIARRTGLPKSTAHRLLQTLVELGYVEQDP 52
pcaR_pcaU TIGR02431
beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Member of this ...
 8-195 9.97e-08

beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Member of this family are IclR-type transcriptional regulators with similar DNA binding sites, able to bind at least three different metabolites related to protocatechuate metabolism. Beta-ketoadipate is the inducer for PcaR, p-hydroxybenzoate for PobR, and protocatechuate for PcaU. [Regulatory functions, DNA interactions]


Pssm-ID: 131484 [Multi-domain]  Cd Length: 248  Bit Score: 51.49  E-value: 9.97e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 751637080    8 LPRAALVMRLLHEAGPaGLRLSQLVQRTGLPQPTAHRLLADLAEQGAVTRRGAAYALGDRWGPVGFEPVTPRCLIEreAS 87
Cdd:TIGR02431   8 LARGLAVIEAFGAERP-RLTLTDVAEATGLTRAAARRFLLTLVELGYVTSDGRLFWLTPRVLRLGYAYLSSAPLPK--VA 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 751637080   88 RAVVQAAADELGDTVYLAARAAGGVAYLLRCdgdSPVRVFTVEVGEVKRLAAgYA---GIALLAALPPERRRAEVDAVVA 164
Cdd:TIGR02431  85 QPLLERLSAQTHESCSVAVLDGDEIVYVARS---PTHRIMSVGLSVGTRLPA-YCtsmGRVLLAGLDDEELDEYLARSTL 160

                         170       180       190
                  ....*....|....*....|....*....|.
gi 751637080  165 RPPRRWNLTDDGALHDLLDtllrQMDEQGWC 195
Cdd:TIGR02431 161 QALTPRTITDRDALLAELL----AVRAQGYA 187
HTH_ICLR smart00346
helix_turn_helix isocitrate lyase regulation;
7-65 1.66e-07

helix_turn_helix isocitrate lyase regulation;


Pssm-ID: 214629 [Multi-domain]  Cd Length: 91  Bit Score: 47.96  E-value: 1.66e-07
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 751637080     7 VLPRAALVMRLLhEAGPAGLRLSQLVQRTGLPQPTAHRLLADLAEQGAVTRRGAA--YALG 65
Cdd:smart00346   3 SLERGLAVLRAL-AEEPGGLTLAELAERLGLSKSTAHRLLNTLQELGYVEQDGQNgrYRLG 62
COG2512 COG2512
Predicted transcriptional regulator, contains CW (cell wall-binding) repeats and an HTH domain ...
 14-58 4.34e-05

Predicted transcriptional regulator, contains CW (cell wall-binding) repeats and an HTH domain [General function prediction only];


Pssm-ID: 442002 [Multi-domain]  Cd Length: 80  Bit Score: 41.05  E-value: 4.34e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 751637080  14 VMRLLHEAGPAgLRLSQLVQRTGLPQPTAHRLLADLAEQGAVTRR 58
Cdd:COG2512   20 VLELLRENGGR-MTQSEIVKETGWSKSKVSRLLSRLEERGLIEKE 63
MarR_2 pfam12802
MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a ...
 5-58 3.92e-04

MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system. The expression of the mar operon is controlled by a repressor, MarR. A large number of compounds induce transcription of the mar operon. This is thought to be due to the compound binding to MarR, and the resulting complex stops MarR binding to the DNA. With the MarR repression lost, transcription of the operon proceeds. The structure of MarR is known and shows MarR as a dimer with each subunit containing a winged-helix DNA binding motif.


Pssm-ID: 432797 [Multi-domain]  Cd Length: 60  Bit Score: 37.57  E-value: 3.92e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 751637080    5 TGVLPRAALVMRLLHEAGpaGLRLSQLVQRTGLPQPTAHRLLADLAEQGAVTRR 58
Cdd:pfam12802   1 LGLTPAQFRVLLALARNP--GLTVAELARRLGISKQTVSRLVKRLEAKGLVERE 52
PRK09834 PRK09834
DNA-binding transcriptional regulator;
1-57 1.69e-03

DNA-binding transcriptional regulator;


Pssm-ID: 182100 [Multi-domain]  Cd Length: 263  Bit Score: 38.82  E-value: 1.69e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 751637080   1 MTPPTGV--LPRAALVMRLLHEAGpAGLRLSQLVQRTGLPQPTAHRLLADLAEQGAVTR 57
Cdd:PRK09834   1 MTEYKTVrgLSRGLMVLRALNRLD-GGATVGLLAELTGLHRTTVRRLLETLQEEGYVRR 58
HTH_MARR smart00347
helix_turn_helix multiple antibiotic resistance protein;
4-58 1.86e-03

helix_turn_helix multiple antibiotic resistance protein;


Pssm-ID: 197670 [Multi-domain]  Cd Length: 101  Bit Score: 36.80  E-value: 1.86e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 751637080     4 PTGVLPRAALVMRLLHEAGPagLRLSQLVQRTGLPQPTAHRLLADLAEQGAVTRR 58
Cdd:smart00347   5 PLGLTPTQFLVLRILYEEGP--LSVSELAKRLGVSPSTVTRVLDRLEKKGLVRRE 57
PRK11569 PRK11569
glyoxylate bypass operon transcriptional repressor IclR;
3-59 5.31e-03

glyoxylate bypass operon transcriptional repressor IclR;


Pssm-ID: 183206 [Multi-domain]  Cd Length: 274  Bit Score: 37.48  E-value: 5.31e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 751637080   3 PPTG---VLPRAALVMRLLHEAgPAGLRLSQLVQRTGLPQPTAHRLLADLAEQGAVTRRG 59
Cdd:PRK11569  19 PATGqvqSLTRGLKLLEWIAES-NGSVALTELAQQAGLPNSTTHRLLTTMQQQGFVRQVG 77
COG4742 COG4742
Predicted transcriptional regulator, contains HTH domain [Transcription];
14-64 5.34e-03

Predicted transcriptional regulator, contains HTH domain [Transcription];


Pssm-ID: 443776 [Multi-domain]  Cd Length: 267  Bit Score: 37.18  E-value: 5.34e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 751637080  14 VMRLLHEaGPagLRLSQLVQRTGLPQPTAHRLLADLAEQGAVTRRGAAYAL 64
Cdd:COG4742   21 ILLLLAE-GP--KTRSELAESLDVSRSTILRQLKELEERGLIERDDGEYEL 68
MarR COG1846
DNA-binding transcriptional regulator, MarR family [Transcription];
4-58 9.23e-03

DNA-binding transcriptional regulator, MarR family [Transcription];


Pssm-ID: 441451 [Multi-domain]  Cd Length: 142  Bit Score: 35.72  E-value: 9.23e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 751637080   4 PTGVLPRAALVMRLLHEAGPagLRLSQLVQRTGLPQPTAHRLLADLAEQGAVTRR 58
Cdd:COG1846   33 ELGLTPAQFRVLAALAEAGG--LTQSELAERLGLTKSTVSRLLDRLEEKGLVERE 85
 
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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