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Conserved domains on  [gi|515629561|ref|WP_017062161|]
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MULTISPECIES: fatty acid metabolism transcriptional regulator FadR [Vibrio]

Protein Classification

fatty acid metabolism regulator( domain architecture ID 11480320)

fatty acid metabolism regulator is a dimeric acyl coenzyme A binding protein and GntR family transcription factor that regulates the expression of genes encoding fatty acid biosynthetic and degrading enzymes

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK04984 PRK04984
fatty acid metabolism transcriptional regulator FadR;
1-279 1.50e-161

fatty acid metabolism transcriptional regulator FadR;


:

Pssm-ID: 179909 [Multi-domain]  Cd Length: 239  Bit Score: 448.17  E-value: 1.50e-161
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561   1 MVIKAKSPAGFAEKYIIESIWNGRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNQFMETSGL 80
Cdd:PRK04984   1 MVIKAQSPAGFAEEYIIESIWNNRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNNFWETSGL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561  81 HILDTLMTLDVDNASKMVEDLLAARTNISPIFMRYAFKANKEASERTISNVIESCEAllaaptwdeflesspyadkikqa 160
Cdd:PRK04984  81 NILETLARLDHDSVPQLIDNLLSARTNISAIFIRTAFRNNPEKALEVLATAEELEDT----------------------- 137

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561 161 vkedsekdeakrqtiliAKTFNFYDYMLFQRLAFHSGNQIYGLIFNGVRKLYDRIGSYYFSNPEARRLAMDFYKELFIIC 240
Cdd:PRK04984 138 -----------------AEAFAEFDYNLFRGLAFASGNPIYGLILNGLKGLYTRVGRYYFSNPEARELALGFYHKLSALC 200

                        250       260       270
                 ....*....|....*....|....*....|....*....
gi 515629561 241 ESGERETLPLVIRNYGIASAQVWNEMKTTLPTNFTEDDS 279
Cdd:PRK04984 201 EEGNHDQVPECVRQYGIESGEIWHRMQKNLPGDLAEQGR 239
 
Name Accession Description Interval E-value
PRK04984 PRK04984
fatty acid metabolism transcriptional regulator FadR;
1-279 1.50e-161

fatty acid metabolism transcriptional regulator FadR;


Pssm-ID: 179909 [Multi-domain]  Cd Length: 239  Bit Score: 448.17  E-value: 1.50e-161
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561   1 MVIKAKSPAGFAEKYIIESIWNGRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNQFMETSGL 80
Cdd:PRK04984   1 MVIKAQSPAGFAEEYIIESIWNNRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNNFWETSGL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561  81 HILDTLMTLDVDNASKMVEDLLAARTNISPIFMRYAFKANKEASERTISNVIESCEAllaaptwdeflesspyadkikqa 160
Cdd:PRK04984  81 NILETLARLDHDSVPQLIDNLLSARTNISAIFIRTAFRNNPEKALEVLATAEELEDT----------------------- 137

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561 161 vkedsekdeakrqtiliAKTFNFYDYMLFQRLAFHSGNQIYGLIFNGVRKLYDRIGSYYFSNPEARRLAMDFYKELFIIC 240
Cdd:PRK04984 138 -----------------AEAFAEFDYNLFRGLAFASGNPIYGLILNGLKGLYTRVGRYYFSNPEARELALGFYHKLSALC 200

                        250       260       270
                 ....*....|....*....|....*....|....*....
gi 515629561 241 ESGERETLPLVIRNYGIASAQVWNEMKTTLPTNFTEDDS 279
Cdd:PRK04984 201 EEGNHDQVPECVRQYGIESGEIWHRMQKNLPGDLAEQGR 239
fadR_gamma TIGR02812
fatty acid metabolism transcriptional regulator FadR; Members of this family are FadR, a ...
 2-276 2.06e-141

fatty acid metabolism transcriptional regulator FadR; Members of this family are FadR, a transcriptional regulator of fatty acid metabolism, including both biosynthesis and beta-oxidation. It is found exclusively in a subset of Gammaproteobacteria, with strictly one copy per genome. It has an N-terminal DNA-binding domain and a less well conserved C-terminal long chain acyl-CoA-binding domain. FadR from this family heterologously expressed in Escherichia coli show differences in regulatory response and fatty acid binding profiles. The family is nevertheless designated equivalog, as all member proteins have at least nominally the same function. [Fatty acid and phospholipid metabolism, Biosynthesis, Fatty acid and phospholipid metabolism, Degradation, Regulatory functions, DNA interactions]


Pssm-ID: 163028 [Multi-domain]  Cd Length: 235  Bit Score: 397.12  E-value: 2.06e-141
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561    2 VIKAKSPAGFAEKYIIESIWNGRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNQFMETSGLH 81
Cdd:TIGR02812   1 VIKAKSPAGFAEEYIVESIWNNRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNNFWETSGLN 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561   82 ILDTLMTLDVDNASKMVEDLLAARTNISPIFMRYAFKANKEasertisnviESCEALLAAPTWDEFlesspyadkikqav 161
Cdd:TIGR02812  81 ILETLIRLDGESVPSLIDNLLSARTNISAIYIRYAFKNNPE----------KALEVLANANELEDT-------------- 136

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561  162 kedsekdeakrqtiliAKTFNFYDYMLFQRLAFHSGNQIYGLIFNGVRKLYDRIGSYYFSNPEARRLAMDFYKELFIICE 241
Cdd:TIGR02812 137 ----------------AEAFTEFDYQLFRGLAFASGNPIYGLILNGLKGLYTRIGRYYFANPEARELALQFYKELQALCK 200

                         250       260       270
                  ....*....|....*....|....*....|....*
gi 515629561  242 SGERETLPLVIRNYGIASAQVWNEMKTTLPTNFTE 276
Cdd:TIGR02812 201 AGNHDEVPDCIRQYGIESGEIWHQMQDELPQDLSE 235
FadR_C pfam07840
FadR C-terminal domain; This family contains sequences that are similar to the fatty acid ...
 72-274 7.77e-74

FadR C-terminal domain; This family contains sequences that are similar to the fatty acid metabolism regulator protein (FadR). This functions as a dimer, with each monomer being composed of an N-terminal DNA-binding domain and a regulatory C-terminal domain. A linker comprising two short alpha helices joins the two domains. In the C-terminal domain, an antiparallel array of six alpha helices forms a barrel-like structure, while a seventh alpha helix forms a 'lid' at the end closest to the N-terminal domain. This structure was found to be similar to that of the C-terminal domain of the Tet repressor. Long-chain acyl-CoA thioesters interact directly and reversibly with the C-terminal domain, and this interaction affects the structure and therefore the DNA binding properties of the N-terminal domain.


Pssm-ID: 429691  Cd Length: 163  Bit Score: 222.91  E-value: 7.77e-74
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561   72 NQFMETSGLHILDTLMTLDVDNASKMVEDLLAARTNISPIFMRYAFKANKEasertisnviESCEALlaaptwdefless 151
Cdd:pfam07840   1 NNFWETSGLNILETLARLDEDSVPDLIDNLLSARTNISAIYIREAIKNNPE----------KSLEVL------------- 57

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561  152 pyadkikQAVKEDSEKdeakrqtiliAKTFNFYDYMLFQRLAFHSGNQIYGLIFNGVRKLYDRIGSYYFSNPEARRLAMD 231
Cdd:pfam07840  58 -------AQLDELEDT----------AEAFAEFDYNLFHGLAFASGNPIYVLILNGFKGLYSRVGRYYFSNPEARELALQ 120

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 515629561  232 FYKELFIICESGERETLPLVIRNYGIASAQVWNEMKTTLPTNF 274
Cdd:pfam07840 121 FYRELLQLCEEGNYDQVMDVVRKYGKESGEIWHSMRLDLPSNF 163
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
3-246 1.53e-35

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


Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 127.36  E-value: 1.53e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561   3 IKAKSPAGFAEKYIIESIWNGRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNQFMETSGLHI 82
Cdd:COG2186    3 IRRRSLAEQVAEQLRELILSGELKPGDRLPSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVREPSPWALLDP 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561  83 LDTLMTLDVDNaskmVEDLLAARTNISPIFMRYAFKANKEASERTISNVIESCEAllAAPTWDEFLEsspyadkikqavk 162
Cdd:COG2186   83 LALLLALDDAS----LRDLLEARLALEPEAARLAAERATDEDLARLEAALAEMEA--AADDGEAFAE------------- 143

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561 163 edsekdeakrqtiliaktfnfYDYMLFQRLAFHSGNQIYGLIFNGVRKLYDRIGSYYFSNPEARRLAMDFYKELFIICES 242
Cdd:COG2186  144 ---------------------ADLAFHRAIAEASGNPLLALLLESLRELLRRSVRLTLRSPEARERSLAEHRAILDAIRA 202


                 ....
gi 515629561 243 GERE 246
Cdd:COG2186  203 GDPE 206
HTH_GNTR smart00345
helix_turn_helix gluconate operon transcriptional repressor;
12-71 1.36e-19

helix_turn_helix gluconate operon transcriptional repressor;


Pssm-ID: 197669 [Multi-domain]  Cd Length: 60  Bit Score: 79.93  E-value: 1.36e-19
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561    12 AEKYIIESIWNGRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKV 71
Cdd:smart00345   1 VAERLREDIVSGELRPGDKLPSERELAAQLGVSRTTVREALSRLEAEGLVQRRPGSGTFV 60
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 15-72 7.15e-18

Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is presumed to result in a conformational change that regulates the DNA-binding affinity of the repressor. The GntR-like proteins bind as dimers, where each monomer recognizes a half-site of 2-fold symmetric DNA sequences.


Pssm-ID: 153418 [Multi-domain]  Cd Length: 66  Bit Score: 75.56  E-value: 7.15e-18
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 515629561  15 YIIESIWNGRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVN 72
Cdd:cd07377    9 QLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFVA 66
 
Name Accession Description Interval E-value
PRK04984 PRK04984
fatty acid metabolism transcriptional regulator FadR;
1-279 1.50e-161

fatty acid metabolism transcriptional regulator FadR;


Pssm-ID: 179909 [Multi-domain]  Cd Length: 239  Bit Score: 448.17  E-value: 1.50e-161
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561   1 MVIKAKSPAGFAEKYIIESIWNGRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNQFMETSGL 80
Cdd:PRK04984   1 MVIKAQSPAGFAEEYIIESIWNNRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNNFWETSGL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561  81 HILDTLMTLDVDNASKMVEDLLAARTNISPIFMRYAFKANKEASERTISNVIESCEAllaaptwdeflesspyadkikqa 160
Cdd:PRK04984  81 NILETLARLDHDSVPQLIDNLLSARTNISAIFIRTAFRNNPEKALEVLATAEELEDT----------------------- 137

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561 161 vkedsekdeakrqtiliAKTFNFYDYMLFQRLAFHSGNQIYGLIFNGVRKLYDRIGSYYFSNPEARRLAMDFYKELFIIC 240
Cdd:PRK04984 138 -----------------AEAFAEFDYNLFRGLAFASGNPIYGLILNGLKGLYTRVGRYYFSNPEARELALGFYHKLSALC 200

                        250       260       270
                 ....*....|....*....|....*....|....*....
gi 515629561 241 ESGERETLPLVIRNYGIASAQVWNEMKTTLPTNFTEDDS 279
Cdd:PRK04984 201 EEGNHDQVPECVRQYGIESGEIWHRMQKNLPGDLAEQGR 239
fadR_gamma TIGR02812
fatty acid metabolism transcriptional regulator FadR; Members of this family are FadR, a ...
 2-276 2.06e-141

fatty acid metabolism transcriptional regulator FadR; Members of this family are FadR, a transcriptional regulator of fatty acid metabolism, including both biosynthesis and beta-oxidation. It is found exclusively in a subset of Gammaproteobacteria, with strictly one copy per genome. It has an N-terminal DNA-binding domain and a less well conserved C-terminal long chain acyl-CoA-binding domain. FadR from this family heterologously expressed in Escherichia coli show differences in regulatory response and fatty acid binding profiles. The family is nevertheless designated equivalog, as all member proteins have at least nominally the same function. [Fatty acid and phospholipid metabolism, Biosynthesis, Fatty acid and phospholipid metabolism, Degradation, Regulatory functions, DNA interactions]


Pssm-ID: 163028 [Multi-domain]  Cd Length: 235  Bit Score: 397.12  E-value: 2.06e-141
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561    2 VIKAKSPAGFAEKYIIESIWNGRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNQFMETSGLH 81
Cdd:TIGR02812   1 VIKAKSPAGFAEEYIVESIWNNRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNNFWETSGLN 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561   82 ILDTLMTLDVDNASKMVEDLLAARTNISPIFMRYAFKANKEasertisnviESCEALLAAPTWDEFlesspyadkikqav 161
Cdd:TIGR02812  81 ILETLIRLDGESVPSLIDNLLSARTNISAIYIRYAFKNNPE----------KALEVLANANELEDT-------------- 136

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561  162 kedsekdeakrqtiliAKTFNFYDYMLFQRLAFHSGNQIYGLIFNGVRKLYDRIGSYYFSNPEARRLAMDFYKELFIICE 241
Cdd:TIGR02812 137 ----------------AEAFTEFDYQLFRGLAFASGNPIYGLILNGLKGLYTRIGRYYFANPEARELALQFYKELQALCK 200

                         250       260       270
                  ....*....|....*....|....*....|....*
gi 515629561  242 SGERETLPLVIRNYGIASAQVWNEMKTTLPTNFTE 276
Cdd:TIGR02812 201 AGNHDEVPDCIRQYGIESGEIWHQMQDELPQDLSE 235
FadR_C pfam07840
FadR C-terminal domain; This family contains sequences that are similar to the fatty acid ...
 72-274 7.77e-74

FadR C-terminal domain; This family contains sequences that are similar to the fatty acid metabolism regulator protein (FadR). This functions as a dimer, with each monomer being composed of an N-terminal DNA-binding domain and a regulatory C-terminal domain. A linker comprising two short alpha helices joins the two domains. In the C-terminal domain, an antiparallel array of six alpha helices forms a barrel-like structure, while a seventh alpha helix forms a 'lid' at the end closest to the N-terminal domain. This structure was found to be similar to that of the C-terminal domain of the Tet repressor. Long-chain acyl-CoA thioesters interact directly and reversibly with the C-terminal domain, and this interaction affects the structure and therefore the DNA binding properties of the N-terminal domain.


Pssm-ID: 429691  Cd Length: 163  Bit Score: 222.91  E-value: 7.77e-74
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561   72 NQFMETSGLHILDTLMTLDVDNASKMVEDLLAARTNISPIFMRYAFKANKEasertisnviESCEALlaaptwdefless 151
Cdd:pfam07840   1 NNFWETSGLNILETLARLDEDSVPDLIDNLLSARTNISAIYIREAIKNNPE----------KSLEVL------------- 57

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561  152 pyadkikQAVKEDSEKdeakrqtiliAKTFNFYDYMLFQRLAFHSGNQIYGLIFNGVRKLYDRIGSYYFSNPEARRLAMD 231
Cdd:pfam07840  58 -------AQLDELEDT----------AEAFAEFDYNLFHGLAFASGNPIYVLILNGFKGLYSRVGRYYFSNPEARELALQ 120

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 515629561  232 FYKELFIICESGERETLPLVIRNYGIASAQVWNEMKTTLPTNF 274
Cdd:pfam07840 121 FYRELLQLCEEGNYDQVMDVVRKYGKESGEIWHSMRLDLPSNF 163
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
3-246 1.53e-35

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


Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 127.36  E-value: 1.53e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561   3 IKAKSPAGFAEKYIIESIWNGRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNQFMETSGLHI 82
Cdd:COG2186    3 IRRRSLAEQVAEQLRELILSGELKPGDRLPSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVREPSPWALLDP 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561  83 LDTLMTLDVDNaskmVEDLLAARTNISPIFMRYAFKANKEASERTISNVIESCEAllAAPTWDEFLEsspyadkikqavk 162
Cdd:COG2186   83 LALLLALDDAS----LRDLLEARLALEPEAARLAAERATDEDLARLEAALAEMEA--AADDGEAFAE------------- 143

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561 163 edsekdeakrqtiliaktfnfYDYMLFQRLAFHSGNQIYGLIFNGVRKLYDRIGSYYFSNPEARRLAMDFYKELFIICES 242
Cdd:COG2186  144 ---------------------ADLAFHRAIAEASGNPLLALLLESLRELLRRSVRLTLRSPEARERSLAEHRAILDAIRA 202


                 ....
gi 515629561 243 GERE 246
Cdd:COG2186  203 GDPE 206
GntR pfam00392
Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the ...
 8-71 4.81e-21

Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the N-terminal HTH region of GntR-like bacterial transcription factors. At the C-terminus there is usually an effector-binding/oligomerization domain. The GntR-like proteins include the following sub-families: MocR, YtrR, FadR, AraR, HutC and PlmA, DevA, DasR. Many of these proteins have been shown experimentally to be autoregulatory, enabling the prediction of operator sites and the discovery of cis/trans relationships. The DasR regulator has been shown to be a global regulator of primary metabolism and development in Streptomyces coelicolor.


Pssm-ID: 306822 [Multi-domain]  Cd Length: 64  Bit Score: 84.20  E-value: 4.81e-21
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 515629561    8 PAGFAEKYIIESIWNGRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKV 71
Cdd:pfam00392   1 LYEQVYARLREDILSGRLRPGDKLPSERELAAEFGVSRTTVREALRRLEAEGLVERRQGRGTFV 64
HTH_GNTR smart00345
helix_turn_helix gluconate operon transcriptional repressor;
12-71 1.36e-19

helix_turn_helix gluconate operon transcriptional repressor;


Pssm-ID: 197669 [Multi-domain]  Cd Length: 60  Bit Score: 79.93  E-value: 1.36e-19
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561    12 AEKYIIESIWNGRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKV 71
Cdd:smart00345   1 VAERLREDIVSGELRPGDKLPSERELAAQLGVSRTTVREALSRLEAEGLVQRRPGSGTFV 60
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 15-72 7.15e-18

Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is presumed to result in a conformational change that regulates the DNA-binding affinity of the repressor. The GntR-like proteins bind as dimers, where each monomer recognizes a half-site of 2-fold symmetric DNA sequences.


Pssm-ID: 153418 [Multi-domain]  Cd Length: 66  Bit Score: 75.56  E-value: 7.15e-18
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 515629561  15 YIIESIWNGRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVN 72
Cdd:cd07377    9 QLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFVA 66
MngR COG2188
DNA-binding transcriptional regulator, GntR family [Transcription];
15-83 1.57e-13

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


Pssm-ID: 441791 [Multi-domain]  Cd Length: 238  Bit Score: 68.35  E-value: 1.57e-13
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 515629561  15 YIIESIWNGRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNQFMETSGLHIL 83
Cdd:COG2188   13 ALRERIESGELPPGDRLPSERELAEEFGVSRMTVRKALDELVEEGLLERRQGRGTFVAEPKIEYPLSRL 81
GntR COG1802
DNA-binding transcriptional regulator, GntR family [Transcription];
3-149 3.69e-12

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


Pssm-ID: 441407 [Multi-domain]  Cd Length: 222  Bit Score: 64.17  E-value: 3.69e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561   3 IKAKSPAGFAEKYIIESIWNGRFPPGSILPaERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNQFmetsglhi 82
Cdd:COG1802    7 LRRESLAEQVYEALREAILSGELPPGERLS-EAELAERLGVSRTPVREALRRLEAEGLVEIRPNRGARVAPL-------- 77

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 515629561  83 ldtlmtlDVDNaskmVEDLLAARTNISPIFMRYAFKANKEASERTISNVIESCEALLAAPTWDEFLE 149
Cdd:COG1802   78 -------SPEE----IRELYEVRAALEGLAARLAAERATPADLARLRALLEELEAAAAAGDVAAYLE 133
PRK03837 PRK03837
transcriptional regulator NanR; Provisional
 16-105 4.04e-11

transcriptional regulator NanR; Provisional


Pssm-ID: 235166 [Multi-domain]  Cd Length: 241  Bit Score: 61.58  E-value: 4.04e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561  16 IIESIWNGRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNQFMETSGLHILDTLMTLDVDNAS 95
Cdd:PRK03837  22 LEQMIRSGEFGPGDQLPSERELMAFFGVGRPAVREALQALKRKGLVQISHGERARVSRPSADTIIGQLSGMAKDFLSQSP 101

                         90
                 ....*....|
gi 515629561  96 KMVEDLLAAR 105
Cdd:PRK03837 102 DGLAHLKQAR 111
ARO8 COG1167
DNA-binding transcriptional regulator, MocR family, contains an aminotransferase domain ...
 15-72 1.15e-09

DNA-binding transcriptional regulator, MocR family, contains an aminotransferase domain [Transcription, Amino acid transport and metabolism]; DNA-binding transcriptional regulator, MocR family, contains an aminotransferase domain is part of the Pathway/BioSystem: Lysine biosynthesis


Pssm-ID: 440781 [Multi-domain]  Cd Length: 471  Bit Score: 58.30  E-value: 1.15e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 515629561  15 YIIESIWNGRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVN 72
Cdd:COG1167   20 ALREAILSGRLPPGDRLPSSRELAAQLGVSRSTVVRAYEELEAEGLIESRPGSGTFVA 77
PRK10421 PRK10421
DNA-binding transcriptional repressor LldR; Provisional
 27-77 6.16e-08

DNA-binding transcriptional repressor LldR; Provisional


Pssm-ID: 236690 [Multi-domain]  Cd Length: 253  Bit Score: 52.46  E-value: 6.16e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 515629561  27 PGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNQFMET 77
Cdd:PRK10421  22 AGMKLPAERQLAMQLGVSRNSLREALAKLVSEGVLLSRRGGGTFIRWRHET 72
C_P_lyase_phnF TIGR02325
phosphonates metabolism transcriptional regulator PhnF; All members of the seed alignment for ...
 20-179 6.25e-08

phosphonates metabolism transcriptional regulator PhnF; All members of the seed alignment for this family are predicted helix-turn-helix transcriptional regulatory proteins of the broader gntR and are found associated with genes for the import and degradation of phosphonates and/or related compounds (e.g. phosphonites) with a direct C-P bond. [Transport and binding proteins, Anions, Regulatory functions, DNA interactions]


Pssm-ID: 131378 [Multi-domain]  Cd Length: 238  Bit Score: 52.09  E-value: 6.25e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561   20 IWNGRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHG---------------KPTKVNQFMETSGLHILD 84
Cdd:TIGR02325  21 IAAGHLRAGDYLPAEMQLAERFGVNRHTVRRAIAALVERGLLRAEQGrgtfvaarridyplsARTRFSQNLADQGREPTG 100

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561   85 TLMTLDVDNASKMVEDLLAARTNISPIFMRYAFKANKeaseRTISNVIESCEALLAAPTWDEFLESSPYADkikqAVKED 164
Cdd:TIGR02325 101 ELLLSDLEPASAELADALGLTVGAPLVRLETLRKADG----RPLCRATTWFPAARFPGIGQAYAASGSITD----ALREQ 172

                         170
                  ....*....|....*
gi 515629561  165 SEKDEAKRQTILIAK 179
Cdd:TIGR02325 173 GVADYRRSSTRISAR 187
PRK11402 PRK11402
transcriptional regulator PhoB;
16-71 2.93e-07

transcriptional regulator PhoB;


Pssm-ID: 183118 [Multi-domain]  Cd Length: 241  Bit Score: 50.22  E-value: 2.93e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 515629561  16 IIESIWNGRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKV 71
Cdd:PRK11402  18 LLDDIAQGVYQAGQQIPTENELCTQYNVSRITIRKAISDLVADGVLIRWQGKGTFV 73
YhcF COG1725
DNA-binding transcriptional regulator YhcF, GntR family [Transcription];
15-71 3.56e-06

DNA-binding transcriptional regulator YhcF, GntR family [Transcription];


Pssm-ID: 441331 [Multi-domain]  Cd Length: 114  Bit Score: 45.17  E-value: 3.56e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 515629561  15 YIIESIWNGRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKV 71
Cdd:COG1725   18 QIKEAIASGELKPGDRLPSVRELAAELGVNPNTVAKAYRELEDEGLIETRRGKGTFV 74
pdhR PRK09464
pyruvate dehydrogenase complex transcriptional repressor PdhR;
13-72 5.80e-06

pyruvate dehydrogenase complex transcriptional repressor PdhR;


Pssm-ID: 181879 [Multi-domain]  Cd Length: 254  Bit Score: 46.55  E-value: 5.80e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561  13 EKYIIEsiwnGRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVN 72
Cdd:PRK09464  20 EFLILE----GTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQ 75
PRK10225 PRK10225
Uxu operon transcriptional regulator;
25-94 2.36e-05

Uxu operon transcriptional regulator;


Pssm-ID: 182318 [Multi-domain]  Cd Length: 257  Bit Score: 44.63  E-value: 2.36e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561  25 FPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGkptkvnqfmetSGLHILDTLMTLDVDNA 94
Cdd:PRK10225  27 YNPGERLPPEREIAEMLDVTRTVVREALIMLEIKGLVEVRRG-----------AGIYVLDSSGSHNTDSP 85
PRK09990 PRK09990
DNA-binding transcriptional regulator GlcC; Provisional
 12-71 8.69e-05

DNA-binding transcriptional regulator GlcC; Provisional


Pssm-ID: 182186 [Multi-domain]  Cd Length: 251  Bit Score: 42.83  E-value: 8.69e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 515629561  12 AEKyiIES-IWNGRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKV 71
Cdd:PRK09990  13 AER--IERlIVDGVLKVGQALPSERRLCEKLGFSRSALREGLTVLRGRGIIETAQGRGSFV 71
TrmB pfam01978
Sugar-specific transcriptional regulator TrmB; One member of this family, TrmB, has been shown ...
 35-70 2.57e-04

Sugar-specific transcriptional regulator TrmB; One member of this family, TrmB, has been shown to be a sugar-specific transcriptional regulator of the trehalose/maltose ABC transporter in Thermococcus litoralis.


Pssm-ID: 396525 [Multi-domain]  Cd Length: 67  Bit Score: 38.66  E-value: 2.57e-04
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 515629561   35 RELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTK 70
Cdd:pfam01978  26 DEIAEESGVPRSKVYEVLRSLEDKGLVEREKGRPKK 61
PRK11523 PRK11523
transcriptional regulator ExuR;
18-83 2.80e-04

transcriptional regulator ExuR;


Pssm-ID: 183176 [Multi-domain]  Cd Length: 253  Bit Score: 41.37  E-value: 2.80e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 515629561  18 ESIWNGRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGkptkvnqfmetSGLHIL 83
Cdd:PRK11523  19 ERIEQGVYLVGDKLPAERFIADEKNVSRTVVREAIIMLEVEGYVEVRKG-----------SGIHVV 73
YrhO COG1378
Sugar-specific transcriptional regulator TrmB [Transcription];
35-70 6.90e-04

Sugar-specific transcriptional regulator TrmB [Transcription];


Pssm-ID: 440988 [Multi-domain]  Cd Length: 238  Bit Score: 40.00  E-value: 6.90e-04
                         10        20        30
                 ....*....|....*....|....*....|....*.
gi 515629561  35 RELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTK 70
Cdd:COG1378   31 SELAKASGVPRSRVYDVLESLEEKGLVEVSEGRPKR 66
HTH_CRP smart00419
helix_turn_helix, cAMP Regulatory protein;
35-67 7.68e-04

helix_turn_helix, cAMP Regulatory protein;


Pssm-ID: 128696 [Multi-domain]  Cd Length: 48  Bit Score: 36.65  E-value: 7.68e-04
                           10        20        30
                   ....*....|....*....|....*....|...
gi 515629561    35 RELSELIGVTRTTLREVLQRLARDGWLTIQHGK 67
Cdd:smart00419  12 QEIAELLGLTRETVSRTLKRLEKEGLISREGGR 44
PRK14999 PRK14999
histidine utilization repressor; Provisional
 7-71 2.22e-03

histidine utilization repressor; Provisional


Pssm-ID: 184961 [Multi-domain]  Cd Length: 241  Bit Score: 38.76  E-value: 2.22e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 515629561   7 SPAGFAEKY---IIESIWNGRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKV 71
Cdd:PRK14999   9 APAPFYETVkqdICKKIAGGVWQPHDRIPSEAELVAQYGFSRMTINRALRELTDEGWLVRLQGVGTFV 76
PRK09764 PRK09764
GntR family transcriptional regulator;
16-168 2.54e-03

GntR family transcriptional regulator;


Pssm-ID: 182065 [Multi-domain]  Cd Length: 240  Bit Score: 38.27  E-value: 2.54e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561  16 IIESIWNGRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNQ-------FMETSglhILDTLMT 88
Cdd:PRK09764  14 IREQIARGELKPGDALPTESALQTEFGVSRVTVRQALRQLVEQQILESIQGSGTYVKEervnydiFQLTS---FDEKLSD 90

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515629561  89 LDVDNASKMV-------EDLLAARTNISPI-----FMRYAFKANKE-ASERTISNViesceALLAAPTWdEFLESSPY-- 153
Cdd:PRK09764  91 RHVDTHSEVLifevipaDDFLQQQLQITAQdrvwhVKRVRYRKQKPmALEETWMPL-----ALFPDLTW-QVMENSKYhf 164

                        170
                 ....*....|....*
gi 515629561 154 ADKIKQAVKEDSEKD 168
Cdd:PRK09764 165 IEEVKKMVIDRSEQE 179
PRK15481 PRK15481
transcriptional regulatory protein PtsJ; Provisional
 16-59 6.82e-03

transcriptional regulatory protein PtsJ; Provisional


Pssm-ID: 185378 [Multi-domain]  Cd Length: 431  Bit Score: 37.72  E-value: 6.82e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 515629561  16 IIESIWNGRFPPGSILPAERELSELIGVTRTTLREVLQRLARDG 59
Cdd:PRK15481  14 IRQLIQAGRLRPGDSLPPVRELASELGVNRNTVAAAYKRLVTAG 57
 
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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