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Conserved domains on  [gi|59940161|gb|AAX12619|]
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LuxR-type transcriptional regulator [Aeromonas sp. 19m]

Protein Classification

LuxR family transcriptional regulator( domain architecture ID 10507072)

LuxR family transcriptional regulator similar to Brucella abortus helix-turn-helix (HTH)-type quorum sensing-dependent transcriptional regulator VjbR, which mediates the effects of the quorum sensing autoinducer C12-HSL (N-dodecanoyl-homoserine lactone)

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Autoind_bind pfam03472
Autoinducer binding domain; This domain is found a a large family of transcriptional ...
 20-166 4.42e-36

Autoinducer binding domain; This domain is found a a large family of transcriptional regulators. This domain specifically binds to autoinducer molecules (N-Acyl homoserine lactones, chlorolactone and rosmarinic acid) (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


:

Pssm-ID: 427319  Cd Length: 148  Bit Score: 125.55  E-value: 4.42e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 59940161    20 DRLAELIGRFTLGMGYDYYRFALIIPMSMQRPKVVLFNQCPDSWVQAYTANHMLACDPIIQLARKQTLPIYWNRLDERAR 99
Cdd:pfam03472   3 EELFDALARLAAALGFDHFAYGARAPLGLSAPDVLVLSNYPAEWLDRYDEANYFAIDPVVRHARRSSSPFSWSDVLFAEA 82

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 59940161   100 FLQEgsLDVMGLAAEFGLRNGISFPLHGAAGENGILSFITAERASSDL-LLESSPVLSWMSNYIFEAA 166
Cdd:pfam03472  83 RGAE--RRFLDEARDFGLRDGYTVPVHGPGGRLGALSFAGPGEDLDPAeAIEAAARLQLLAIYAHLRL 148
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 181-236 1.86e-19

helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon


:

Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 79.49  E-value: 1.86e-19
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 59940161    181 EALTDRETECLFWASEGKTSSEIACILGITERTVNYHLNQVTRKTGSMNRYQAIAK 236
Cdd:smart00421   2 ASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRL 57
 
Name Accession Description Interval E-value
Autoind_bind pfam03472
Autoinducer binding domain; This domain is found a a large family of transcriptional ...
 20-166 4.42e-36

Autoinducer binding domain; This domain is found a a large family of transcriptional regulators. This domain specifically binds to autoinducer molecules (N-Acyl homoserine lactones, chlorolactone and rosmarinic acid) (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 427319  Cd Length: 148  Bit Score: 125.55  E-value: 4.42e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 59940161    20 DRLAELIGRFTLGMGYDYYRFALIIPMSMQRPKVVLFNQCPDSWVQAYTANHMLACDPIIQLARKQTLPIYWNRLDERAR 99
Cdd:pfam03472   3 EELFDALARLAAALGFDHFAYGARAPLGLSAPDVLVLSNYPAEWLDRYDEANYFAIDPVVRHARRSSSPFSWSDVLFAEA 82

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 59940161   100 FLQEgsLDVMGLAAEFGLRNGISFPLHGAAGENGILSFITAERASSDL-LLESSPVLSWMSNYIFEAA 166
Cdd:pfam03472  83 RGAE--RRFLDEARDFGLRDGYTVPVHGPGGRLGALSFAGPGEDLDPAeAIEAAARLQLLAIYAHLRL 148
PRK10188 PRK10188
transcriptional regulator SdiA;
10-243 8.53e-24

transcriptional regulator SdiA;


Pssm-ID: 182292 [Multi-domain]  Cd Length: 240  Bit Score: 96.01  E-value: 8.53e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 59940161   10 LEHFTSVTDGDRLAELIGRFTLGMGYDYYRFALIIPMSMQRPKVVLFNQCPDSWVQAYTANHMLACDPIIQLARKQTLPI 89
Cdd:PRK10188  14 LLRFQEMAAAEEVYHELQLQTQQLEYDYYSLCVRHPVPFTRPKVAFYTTYPEAWVSHYQAENYFAIDPVLKPENFSQGHL 93

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 59940161   90 YWN-RLDERARFLQEGsldvmglAAEFGLRNGISFPLhgaAGENGILSFITAERASsdllLESSPVLSwmsnyiFEAAIR 168
Cdd:PRK10188  94 MWNdDLFSEAQALWDA-------ARAHGLRRGVTQCL---MLPNRALGFLSFSRCS----AREIPILS------DELELR 153

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 59940161  169 ---IVRVSL----RDDD-----PQEALTDRETECLFWASEGKTSSEIACILGITERTVNYHLNQVTRKTGSMNRYQAIAK 236
Cdd:PRK10188 154 lqlLVRESLmalmRLEDemvmtPEMNFSKREKEILKWTAEGKTSAEIAMILSISENTVNFHQKNMQKKFNAPNKTQIACY 233


                 ....*..
gi 59940161  237 GVSSGIL 243
Cdd:PRK10188 234 AAATGLI 240
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
71-243 2.10e-20

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 85.96  E-value: 2.10e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 59940161  71 HMLACDPIIQLARKQTLPIYWNRLDERARFLQEGSLDVMGLAAEFGLRNGISFPLHGAAGENGILSFITAERASSDLLLE 150
Cdd:COG2771  16 LLLALLALLLLLLLAALLLLLALLLLAALLLLAAAAAALAAALAAALLLGLLLLLLIALLLLLLLLLALLLLLALLALLA 95

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 59940161 151 SSPVLSWMSNYIFEAAIRIVRVSLRDDDPQEALTDRETECLFWASEGKTSSEIACILGITERTVNYHLNQVTRKTGSMNR 230
Cdd:COG2771  96 ALLARLAALLLALALAALLLAALARLLARAPGLTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSSR 175

                       170
                ....*....|...
gi 59940161 231 YQAIAKGVSSGIL 243
Cdd:COG2771 176 AELVALALRLGLI 188
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 181-236 1.86e-19

helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 79.49  E-value: 1.86e-19
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 59940161    181 EALTDRETECLFWASEGKTSSEIACILGITERTVNYHLNQVTRKTGSMNRYQAIAK 236
Cdd:smart00421   2 ASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRL 57
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 183-239 1.16e-18

C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many are active as homodimers. Many are two domain proteins in which the DNA binding property of the C-terminal DNA binding domain is modulated by modifications of the N-terminal domain. For example in the case of Lux R which participates in the regulation of gene expression in response to fluctuations in cell-population density (quorum-sensing), a signaling molecule, the pheromone Acyl HSL (N-acyl derivatives of homoserine lactone), binds to the N-terminal domain and leads to LuxR dimerization. For others phophorylation of the N-terminal domain leads to multimerization, for example Escherichia coli NarL and Sinorhizobium melilot FixJ. NarL controls gene expression of many respiratory-related operons when environmental nitrate or nitrite is present under anerobic conditions. FixJ is involved in the transcriptional activation of nitrogen fixation genes. The group also includes small proteins which lack an N-terminal signaling domain, such as Bacillus subtilis GerE. GerE is dimeric and acts in conjunction with sigmaK as an activator or a repressor modulating the expression of various genes in particular those encoding the spore-coat. These LuxR family regulators may share a similar organization of their target binding sites. For example the LuxR dimer binds the lux box, a 20bp inverted repeat, GerE dimers bind two 12bp consensus sequences in inverted orientation having the central four bases overlap, and the NarL dimer binds two 7bp inverted repeats separated by 2 bp.


Pssm-ID: 99777 [Multi-domain]  Cd Length: 57  Bit Score: 77.19  E-value: 1.16e-18
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 59940161 183 LTDRETECLFWASEGKTSSEIACILGITERTVNYHLNQVTRKTGSMNRYQAIAKGVS 239
Cdd:cd06170   1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYAIR 57
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 178-246 2.29e-16

Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell division, chromosome partitioning, Transcription];


Pssm-ID: 444607 [Multi-domain]  Cd Length: 76  Bit Score: 71.53  E-value: 2.29e-16
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 59940161 178 DPQEALTDRETECLFWASEGKTSSEIACILGITERTVNYHLNQVTRKTGSMNRYQAIAKGVSSGILLPN 246
Cdd:COG5905   8 SHPSLLTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWALRLGLLSLD 76
GerE pfam00196
Bacterial regulatory proteins, luxR family;
183-234 1.92e-11

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 57.98  E-value: 1.92e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 59940161   183 LTDRETECLFWASEGKTSSEIACILGITERTVNYHLNQVTRKTGSMNRYQAI 234
Cdd:pfam00196   3 LSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELV 54
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
177-233 5.84e-04

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 40.22  E-value: 5.84e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 59940161  177 DDPQEALTDRETECLFWASEGKTSSEIACILGITERTVNYHLNQVTRKTGSMNRYQA 233
Cdd:PRK10403 148 EDPFSVLTERELDVLHELAQGLSNKQIASVLNISEQTVKVHIRNLLRKLNVRSRVAA 204
Sig70_bacteroi1 TIGR02985
RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors ...
 196-224 5.74e-03

RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.


Pssm-ID: 274376 [Multi-domain]  Cd Length: 161  Bit Score: 36.39  E-value: 5.74e-03
                          10        20
                  ....*....|....*....|....*....
gi 59940161   196 EGKTSSEIACILGITERTVNYHLNQVTRK 224
Cdd:TIGR02985 128 EGLSNKEIAEELGISVKTVEYHITKALKF 156
 
Name Accession Description Interval E-value
Autoind_bind pfam03472
Autoinducer binding domain; This domain is found a a large family of transcriptional ...
 20-166 4.42e-36

Autoinducer binding domain; This domain is found a a large family of transcriptional regulators. This domain specifically binds to autoinducer molecules (N-Acyl homoserine lactones, chlorolactone and rosmarinic acid) (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 427319  Cd Length: 148  Bit Score: 125.55  E-value: 4.42e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 59940161    20 DRLAELIGRFTLGMGYDYYRFALIIPMSMQRPKVVLFNQCPDSWVQAYTANHMLACDPIIQLARKQTLPIYWNRLDERAR 99
Cdd:pfam03472   3 EELFDALARLAAALGFDHFAYGARAPLGLSAPDVLVLSNYPAEWLDRYDEANYFAIDPVVRHARRSSSPFSWSDVLFAEA 82

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 59940161   100 FLQEgsLDVMGLAAEFGLRNGISFPLHGAAGENGILSFITAERASSDL-LLESSPVLSWMSNYIFEAA 166
Cdd:pfam03472  83 RGAE--RRFLDEARDFGLRDGYTVPVHGPGGRLGALSFAGPGEDLDPAeAIEAAARLQLLAIYAHLRL 148
PRK10188 PRK10188
transcriptional regulator SdiA;
10-243 8.53e-24

transcriptional regulator SdiA;


Pssm-ID: 182292 [Multi-domain]  Cd Length: 240  Bit Score: 96.01  E-value: 8.53e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 59940161   10 LEHFTSVTDGDRLAELIGRFTLGMGYDYYRFALIIPMSMQRPKVVLFNQCPDSWVQAYTANHMLACDPIIQLARKQTLPI 89
Cdd:PRK10188  14 LLRFQEMAAAEEVYHELQLQTQQLEYDYYSLCVRHPVPFTRPKVAFYTTYPEAWVSHYQAENYFAIDPVLKPENFSQGHL 93

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 59940161   90 YWN-RLDERARFLQEGsldvmglAAEFGLRNGISFPLhgaAGENGILSFITAERASsdllLESSPVLSwmsnyiFEAAIR 168
Cdd:PRK10188  94 MWNdDLFSEAQALWDA-------ARAHGLRRGVTQCL---MLPNRALGFLSFSRCS----AREIPILS------DELELR 153

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 59940161  169 ---IVRVSL----RDDD-----PQEALTDRETECLFWASEGKTSSEIACILGITERTVNYHLNQVTRKTGSMNRYQAIAK 236
Cdd:PRK10188 154 lqlLVRESLmalmRLEDemvmtPEMNFSKREKEILKWTAEGKTSAEIAMILSISENTVNFHQKNMQKKFNAPNKTQIACY 233


                 ....*..
gi 59940161  237 GVSSGIL 243
Cdd:PRK10188 234 AAATGLI 240
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
71-243 2.10e-20

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 85.96  E-value: 2.10e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 59940161  71 HMLACDPIIQLARKQTLPIYWNRLDERARFLQEGSLDVMGLAAEFGLRNGISFPLHGAAGENGILSFITAERASSDLLLE 150
Cdd:COG2771  16 LLLALLALLLLLLLAALLLLLALLLLAALLLLAAAAAALAAALAAALLLGLLLLLLIALLLLLLLLLALLLLLALLALLA 95

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 59940161 151 SSPVLSWMSNYIFEAAIRIVRVSLRDDDPQEALTDRETECLFWASEGKTSSEIACILGITERTVNYHLNQVTRKTGSMNR 230
Cdd:COG2771  96 ALLARLAALLLALALAALLLAALARLLARAPGLTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSSR 175

                       170
                ....*....|...
gi 59940161 231 YQAIAKGVSSGIL 243
Cdd:COG2771 176 AELVALALRLGLI 188
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 181-236 1.86e-19

helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 79.49  E-value: 1.86e-19
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 59940161    181 EALTDRETECLFWASEGKTSSEIACILGITERTVNYHLNQVTRKTGSMNRYQAIAK 236
Cdd:smart00421   2 ASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRL 57
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 183-239 1.16e-18

C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many are active as homodimers. Many are two domain proteins in which the DNA binding property of the C-terminal DNA binding domain is modulated by modifications of the N-terminal domain. For example in the case of Lux R which participates in the regulation of gene expression in response to fluctuations in cell-population density (quorum-sensing), a signaling molecule, the pheromone Acyl HSL (N-acyl derivatives of homoserine lactone), binds to the N-terminal domain and leads to LuxR dimerization. For others phophorylation of the N-terminal domain leads to multimerization, for example Escherichia coli NarL and Sinorhizobium melilot FixJ. NarL controls gene expression of many respiratory-related operons when environmental nitrate or nitrite is present under anerobic conditions. FixJ is involved in the transcriptional activation of nitrogen fixation genes. The group also includes small proteins which lack an N-terminal signaling domain, such as Bacillus subtilis GerE. GerE is dimeric and acts in conjunction with sigmaK as an activator or a repressor modulating the expression of various genes in particular those encoding the spore-coat. These LuxR family regulators may share a similar organization of their target binding sites. For example the LuxR dimer binds the lux box, a 20bp inverted repeat, GerE dimers bind two 12bp consensus sequences in inverted orientation having the central four bases overlap, and the NarL dimer binds two 7bp inverted repeats separated by 2 bp.


Pssm-ID: 99777 [Multi-domain]  Cd Length: 57  Bit Score: 77.19  E-value: 1.16e-18
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 59940161 183 LTDRETECLFWASEGKTSSEIACILGITERTVNYHLNQVTRKTGSMNRYQAIAKGVS 239
Cdd:cd06170   1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYAIR 57
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 178-246 2.29e-16

Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell division, chromosome partitioning, Transcription];


Pssm-ID: 444607 [Multi-domain]  Cd Length: 76  Bit Score: 71.53  E-value: 2.29e-16
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 59940161 178 DPQEALTDRETECLFWASEGKTSSEIACILGITERTVNYHLNQVTRKTGSMNRYQAIAKGVSSGILLPN 246
Cdd:COG5905   8 SHPSLLTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWALRLGLLSLD 76
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 169-243 4.33e-15

DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 441799 [Multi-domain]  Cd Length: 131  Bit Score: 69.92  E-value: 4.33e-15
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 59940161 169 IVRVSLRDDDPQEA----LTDRETECLFWASEGKTSSEIACILGITERTVNYHLNQVTRKTGSMNRYQAIAKGVSSGIL 243
Cdd:COG2197  52 LLDIRMPGMDGLEAlrrlLTPREREVLRLLAEGLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGLL 130
GerE pfam00196
Bacterial regulatory proteins, luxR family;
183-234 1.92e-11

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 57.98  E-value: 1.92e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 59940161   183 LTDRETECLFWASEGKTSSEIACILGITERTVNYHLNQVTRKTGSMNRYQAI 234
Cdd:pfam00196   3 LSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELV 54
PRK13870 PRK13870
transcriptional regulator TraR; Provisional
 5-245 1.20e-10

transcriptional regulator TraR; Provisional


Pssm-ID: 172390 [Multi-domain]  Cd Length: 234  Bit Score: 60.01  E-value: 1.20e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 59940161    5 HQLEYLEHFTSVtDGDrlaELIGRFTLGMGYDYYRFALIIPMSMQRPKVVLFNQCPDSWVQAYTANHMLACDPIIQLARK 84
Cdd:PRK13870   3 HWLDKLTDLAAI-EGD---ECILKTGLADIADHFGFTGYAYLHIQHRHITAVTNYHREWQSVYFDKKFDALDPVVKRARS 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 59940161   85 QTLPIYWNRLDERARfLQEGSLDVMGLAAEFGLRNGISFPLHGAageNGILSFIT--AERASSDLLLESSPVLSWMSNYI 162
Cdd:PRK13870  79 RKHIFTWSGEQERPR-LSKDERAFYAHAADFGIRSGITIPIKTA---NGSMSMFTlaSEKPVIDLDREIDAVAAAATIGQ 154

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 59940161  163 FEAAIRIVRVSLRDDDPQeALTDRETECLFWASEGKTSSEIACILGITERTVNYHLNQvtrktgSMNRYQAIAKGVSSGI 242
Cdd:PRK13870 155 IHARISFLRTTPTAEDAA-WLDPKEATYLRWIAVGKTMEEIADVEGVKYNSVRVKLRE------AMKRFDVRSKAHLTAL 227


                 ...
gi 59940161  243 LLP 245
Cdd:PRK13870 228 AIR 230
MalT COG2909
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];
174-243 4.38e-07

ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];


Pssm-ID: 442153 [Multi-domain]  Cd Length: 184  Bit Score: 48.93  E-value: 4.38e-07
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 59940161 174 LRDDDPQEAltdRETECLFWASEGKTSSEIACILGITERTVNYHLNQVTRKTGSMNRYQAIAKGVSSGIL 243
Cdd:COG2909 117 RALGDREEA---LAALRRRLLAEGLSNKEIAERLFISVNTVKTHLRNIYRKLGVRSRTEAVARARELGLL 183
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 181-226 3.59e-04

DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 443623 [Multi-domain]  Cd Length: 196  Bit Score: 40.47  E-value: 3.59e-04
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*.
gi 59940161 181 EALTDRETECLFWASEGKTSSEIACILGITERTVNYHLNQVTRKTG 226
Cdd:COG4566 136 ASLTPREREVLDLVVAGLSNKQIARELGISPRTVEVHRANVMEKLG 181
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
177-233 5.84e-04

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 40.22  E-value: 5.84e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 59940161  177 DDPQEALTDRETECLFWASEGKTSSEIACILGITERTVNYHLNQVTRKTGSMNRYQA 233
Cdd:PRK10403 148 EDPFSVLTERELDVLHELAQGLSNKQIASVLNISEQTVKVHIRNLLRKLNVRSRVAA 204
PRK10100 PRK10100
transcriptional regulator CsgD;
183-235 6.91e-04

transcriptional regulator CsgD;


Pssm-ID: 182241 [Multi-domain]  Cd Length: 216  Bit Score: 39.85  E-value: 6.91e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 59940161  183 LTDRETECLFWASEGKTSSEIACILGITERTVNYHLNQVTRKTGSMNRYQAIA 235
Cdd:PRK10100 156 LTHREKEILNKLRIGASNNEIARSLFISENTVKTHLYNLFKKIAVKNRTQAVS 208
Sigma70_r4_2 pfam08281
Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 ...
 181-218 3.51e-03

Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif.


Pssm-ID: 400535 [Multi-domain]  Cd Length: 54  Bit Score: 34.74  E-value: 3.51e-03
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 59940161   181 EALTDRETECLFWAS-EGKTSSEIACILGITERTVNYHL 218
Cdd:pfam08281   9 EELPPRQREVFLLRYlEGLSYAEIAELLGISEGTVKSRL 47
Sig70_bacteroi1 TIGR02985
RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors ...
 196-224 5.74e-03

RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.


Pssm-ID: 274376 [Multi-domain]  Cd Length: 161  Bit Score: 36.39  E-value: 5.74e-03
                          10        20
                  ....*....|....*....|....*....
gi 59940161   196 EGKTSSEIACILGITERTVNYHLNQVTRK 224
Cdd:TIGR02985 128 EGLSNKEIAEELGISVKTVEYHITKALKF 156
HTH_ARSR smart00418
helix_turn_helix, Arsenical Resistance Operon Repressor;
194-232 8.59e-03

helix_turn_helix, Arsenical Resistance Operon Repressor;


Pssm-ID: 197713 [Multi-domain]  Cd Length: 66  Bit Score: 34.11  E-value: 8.59e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*.
gi 59940161    194 ASEGKTSSEIACILGITERTVNYHLNQ-------VTRKTGSMNRYQ 232
Cdd:smart00418   7 AEGELCVCELAEILGLSQSTVSHHLKKlreaglvESRREGKRVYYS 52
 
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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