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Conserved domains on  [gi|491899178|ref|WP_005659812|]
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MULTISPECIES: fatty acid metabolism transcriptional regulator FadR [Haemophilus]

Protein Classification

fatty acid metabolism regulator( domain architecture ID 11495504)

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
fadR_gamma TIGR02812
fatty acid metabolism transcriptional regulator FadR; Members of this family are FadR, a ...
 7-241 9.48e-154

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: 426.78  E-value: 9.48e-154
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178    7 ILKAQSPAALAEEYIVKSIWQDVFPSGSNLPSERDLADKIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNNIWDAAGPN 86
Cdd:TIGR02812   1 VIKAKSPAGFAEEYIVESIWNNRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNNFWETSGLN 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178   87 IIETLIALDMQSAPLIIDNMLSLRSKMSESYIYEAVKNSPQKSTALFAELEQLQNTAQDYTEFDYQLFRQFTVVANKPFY 166
Cdd:TIGR02812  81 ILETLIRLDGESVPSLIDNLLSARTNISAIYIRYAFKNNPEKALEVLANANELEDTAEAFTEFDYQLFRGLAFASGNPIY 160

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 491899178  167 RLIFNSLKGVYQRIGLLFFKEKKHRELTKQFYLEMQQICLEGNADAVVDCIRKHNLRSSTYWKAILERLPQNLSD 241
Cdd:TIGR02812 161 GLILNGLKGLYTRIGRYYFANPEARELALQFYKELQALCKAGNHDEVPDCIRQYGIESGEIWHQMQDELPQDLSE 235
 
Name Accession Description Interval E-value
fadR_gamma TIGR02812
fatty acid metabolism transcriptional regulator FadR; Members of this family are FadR, a ...
 7-241 9.48e-154

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: 426.78  E-value: 9.48e-154
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178    7 ILKAQSPAALAEEYIVKSIWQDVFPSGSNLPSERDLADKIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNNIWDAAGPN 86
Cdd:TIGR02812   1 VIKAKSPAGFAEEYIVESIWNNRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNNFWETSGLN 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178   87 IIETLIALDMQSAPLIIDNMLSLRSKMSESYIYEAVKNSPQKSTALFAELEQLQNTAQDYTEFDYQLFRQFTVVANKPFY 166
Cdd:TIGR02812  81 ILETLIRLDGESVPSLIDNLLSARTNISAIYIRYAFKNNPEKALEVLANANELEDTAEAFTEFDYQLFRGLAFASGNPIY 160

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 491899178  167 RLIFNSLKGVYQRIGLLFFKEKKHRELTKQFYLEMQQICLEGNADAVVDCIRKHNLRSSTYWKAILERLPQNLSD 241
Cdd:TIGR02812 161 GLILNGLKGLYTRIGRYYFANPEARELALQFYKELQALCKAGNHDEVPDCIRQYGIESGEIWHQMQDELPQDLSE 235
PRK04984 PRK04984
fatty acid metabolism transcriptional regulator FadR;
6-241 2.35e-147

fatty acid metabolism transcriptional regulator FadR;


Pssm-ID: 179909 [Multi-domain]  Cd Length: 239  Bit Score: 410.42  E-value: 2.35e-147
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178   6 DILKAQSPAALAEEYIVKSIWQDVFPSGSNLPSERDLADKIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNNIWDAAGP 85
Cdd:PRK04984   1 MVIKAQSPAGFAEEYIIESIWNNRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNNFWETSGL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178  86 NIIETLIALDMQSAPLIIDNMLSLRSKMSESYIYEAVKNSPQKSTALFAELEQLQNTAQDYTEFDYQLFRQFTVVANKPF 165
Cdd:PRK04984  81 NILETLARLDHDSVPQLIDNLLSARTNISAIFIRTAFRNNPEKALEVLATAEELEDTAEAFAEFDYNLFRGLAFASGNPI 160

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 491899178 166 YRLIFNSLKGVYQRIGLLFFKEKKHRELTKQFYLEMQQICLEGNADAVVDCIRKHNLRSSTYWKAILERLPQNLSD 241
Cdd:PRK04984 161 YGLILNGLKGLYTRVGRYYFSNPEARELALGFYHKLSALCEEGNHDQVPECVRQYGIESGEIWHRMQKNLPGDLAE 236
FadR_C pfam07840
FadR C-terminal domain; This family contains sequences that are similar to the fatty acid ...
 77-239 9.30e-85

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: 249.10  E-value: 9.30e-85
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178   77 NNIWDAAGPNIIETLIALDMQSAPLIIDNMLSLRSKMSESYIYEAVKNSPQKSTALFAELEQLQNTAQDYTEFDYQLFRQ 156
Cdd:pfam07840   1 NNFWETSGLNILETLARLDEDSVPDLIDNLLSARTNISAIYIREAIKNNPEKSLEVLAQLDELEDTAEAFAEFDYNLFHG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178  157 FTVVANKPFYRLIFNSLKGVYQRIGLLFFKEKKHRELTKQFYLEMQQICLEGNADAVVDCIRKHNLRSSTYWKAILERLP 236
Cdd:pfam07840  81 LAFASGNPIYVLILNGFKGLYSRVGRYYFSNPEARELALQFYRELLQLCEEGNYDQVMDVVRKYGKESGEIWHSMRLDLP 160


                  ...
gi 491899178  237 QNL 239
Cdd:pfam07840 161 SNF 163
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
8-236 1.01e-31

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


Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 116.19  E-value: 1.01e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178   8 LKAQSPAALAEEYIVKSIWQDVFPSGSNLPSERDLADKIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNNIWDAAGPNI 87
Cdd:COG2186    3 IRRRSLAEQVAEQLRELILSGELKPGDRLPSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVREPSPWALLDP 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178  88 IETLIALDMQSapliIDNMLSLRsKMSESYI-YEAVKNSPQKS----TALFAELEQLQNTAQDYTEFDYQLFRQFTVVAN 162
Cdd:COG2186   83 LALLLALDDAS----LRDLLEAR-LALEPEAaRLAAERATDEDlarlEAALAEMEAAADDGEAFAEADLAFHRAIAEASG 157

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 491899178 163 KPFYRLIFNSLKGVYQRIGLLFFKEKKHRELTKQFYLEMQQICLEGNADAVVDCIRKHNLRSSTYWKAILERLP 236
Cdd:COG2186  158 NPLLALLLESLRELLRRSVRLTLRSPEARERSLAEHRAILDAIRAGDPEAARAAMRAHLEAVRERLREALAERA 231
HTH_GNTR smart00345
helix_turn_helix gluconate operon transcriptional repressor;
17-76 5.49e-17

helix_turn_helix gluconate operon transcriptional repressor;


Pssm-ID: 197669 [Multi-domain]  Cd Length: 60  Bit Score: 72.61  E-value: 5.49e-17
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178    17 AEEYIVKSIWQDVFPSGSNLPSERDLADKIGVTRTTLREVLQRLARDGWLTIQHGKPTKV 76
Cdd:smart00345   1 VAERLREDIVSGELRPGDKLPSERELAAQLGVSRTTVREALSRLEAEGLVQRRPGSGTFV 60
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 19-77 2.38e-15

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: 68.24  E-value: 2.38e-15
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 491899178  19 EYIVKSIWQDVFPSGSNLPSERDLADKIGVTRTTLREVLQRLARDGWLTIQHGKPTKVN 77
Cdd:cd07377    8 DQLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFVA 66
 
Name Accession Description Interval E-value
fadR_gamma TIGR02812
fatty acid metabolism transcriptional regulator FadR; Members of this family are FadR, a ...
 7-241 9.48e-154

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: 426.78  E-value: 9.48e-154
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178    7 ILKAQSPAALAEEYIVKSIWQDVFPSGSNLPSERDLADKIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNNIWDAAGPN 86
Cdd:TIGR02812   1 VIKAKSPAGFAEEYIVESIWNNRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNNFWETSGLN 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178   87 IIETLIALDMQSAPLIIDNMLSLRSKMSESYIYEAVKNSPQKSTALFAELEQLQNTAQDYTEFDYQLFRQFTVVANKPFY 166
Cdd:TIGR02812  81 ILETLIRLDGESVPSLIDNLLSARTNISAIYIRYAFKNNPEKALEVLANANELEDTAEAFTEFDYQLFRGLAFASGNPIY 160

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 491899178  167 RLIFNSLKGVYQRIGLLFFKEKKHRELTKQFYLEMQQICLEGNADAVVDCIRKHNLRSSTYWKAILERLPQNLSD 241
Cdd:TIGR02812 161 GLILNGLKGLYTRIGRYYFANPEARELALQFYKELQALCKAGNHDEVPDCIRQYGIESGEIWHQMQDELPQDLSE 235
PRK04984 PRK04984
fatty acid metabolism transcriptional regulator FadR;
6-241 2.35e-147

fatty acid metabolism transcriptional regulator FadR;


Pssm-ID: 179909 [Multi-domain]  Cd Length: 239  Bit Score: 410.42  E-value: 2.35e-147
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178   6 DILKAQSPAALAEEYIVKSIWQDVFPSGSNLPSERDLADKIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNNIWDAAGP 85
Cdd:PRK04984   1 MVIKAQSPAGFAEEYIIESIWNNRFPPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNNFWETSGL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178  86 NIIETLIALDMQSAPLIIDNMLSLRSKMSESYIYEAVKNSPQKSTALFAELEQLQNTAQDYTEFDYQLFRQFTVVANKPF 165
Cdd:PRK04984  81 NILETLARLDHDSVPQLIDNLLSARTNISAIFIRTAFRNNPEKALEVLATAEELEDTAEAFAEFDYNLFRGLAFASGNPI 160

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 491899178 166 YRLIFNSLKGVYQRIGLLFFKEKKHRELTKQFYLEMQQICLEGNADAVVDCIRKHNLRSSTYWKAILERLPQNLSD 241
Cdd:PRK04984 161 YGLILNGLKGLYTRVGRYYFSNPEARELALGFYHKLSALCEEGNHDQVPECVRQYGIESGEIWHRMQKNLPGDLAE 236
FadR_C pfam07840
FadR C-terminal domain; This family contains sequences that are similar to the fatty acid ...
 77-239 9.30e-85

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: 249.10  E-value: 9.30e-85
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178   77 NNIWDAAGPNIIETLIALDMQSAPLIIDNMLSLRSKMSESYIYEAVKNSPQKSTALFAELEQLQNTAQDYTEFDYQLFRQ 156
Cdd:pfam07840   1 NNFWETSGLNILETLARLDEDSVPDLIDNLLSARTNISAIYIREAIKNNPEKSLEVLAQLDELEDTAEAFAEFDYNLFHG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178  157 FTVVANKPFYRLIFNSLKGVYQRIGLLFFKEKKHRELTKQFYLEMQQICLEGNADAVVDCIRKHNLRSSTYWKAILERLP 236
Cdd:pfam07840  81 LAFASGNPIYVLILNGFKGLYSRVGRYYFSNPEARELALQFYRELLQLCEEGNYDQVMDVVRKYGKESGEIWHSMRLDLP 160


                  ...
gi 491899178  237 QNL 239
Cdd:pfam07840 161 SNF 163
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
8-236 1.01e-31

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


Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 116.19  E-value: 1.01e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178   8 LKAQSPAALAEEYIVKSIWQDVFPSGSNLPSERDLADKIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNNIWDAAGPNI 87
Cdd:COG2186    3 IRRRSLAEQVAEQLRELILSGELKPGDRLPSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVREPSPWALLDP 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178  88 IETLIALDMQSapliIDNMLSLRsKMSESYI-YEAVKNSPQKS----TALFAELEQLQNTAQDYTEFDYQLFRQFTVVAN 162
Cdd:COG2186   83 LALLLALDDAS----LRDLLEAR-LALEPEAaRLAAERATDEDlarlEAALAEMEAAADDGEAFAEADLAFHRAIAEASG 157

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 491899178 163 KPFYRLIFNSLKGVYQRIGLLFFKEKKHRELTKQFYLEMQQICLEGNADAVVDCIRKHNLRSSTYWKAILERLP 236
Cdd:COG2186  158 NPLLALLLESLRELLRRSVRLTLRSPEARERSLAEHRAILDAIRAGDPEAARAAMRAHLEAVRERLREALAERA 231
GntR pfam00392
Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the ...
 17-76 5.53e-18

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: 75.34  E-value: 5.53e-18
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178   17 AEEYIVKSIWQDVFPSGSNLPSERDLADKIGVTRTTLREVLQRLARDGWLTIQHGKPTKV 76
Cdd:pfam00392   5 VYARLREDILSGRLRPGDKLPSERELAAEFGVSRTTVREALRRLEAEGLVERRQGRGTFV 64
HTH_GNTR smart00345
helix_turn_helix gluconate operon transcriptional repressor;
17-76 5.49e-17

helix_turn_helix gluconate operon transcriptional repressor;


Pssm-ID: 197669 [Multi-domain]  Cd Length: 60  Bit Score: 72.61  E-value: 5.49e-17
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178    17 AEEYIVKSIWQDVFPSGSNLPSERDLADKIGVTRTTLREVLQRLARDGWLTIQHGKPTKV 76
Cdd:smart00345   1 VAERLREDIVSGELRPGDKLPSERELAAQLGVSRTTVREALSRLEAEGLVQRRPGSGTFV 60
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 19-77 2.38e-15

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: 68.24  E-value: 2.38e-15
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 491899178  19 EYIVKSIWQDVFPSGSNLPSERDLADKIGVTRTTLREVLQRLARDGWLTIQHGKPTKVN 77
Cdd:cd07377    8 DQLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFVA 66
GntR COG1802
DNA-binding transcriptional regulator, GntR family [Transcription];
3-237 3.04e-15

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


Pssm-ID: 441407 [Multi-domain]  Cd Length: 222  Bit Score: 72.26  E-value: 3.04e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178   3 NNNDILKAQSPAALAEEYIVKSIWQDVFPSGSNLpSERDLADKIGVTRTTLREVLQRLARDGWLTIQHGKPTKV-----N 77
Cdd:COG1802    2 TSPSPLRRESLAEQVYEALREAILSGELPPGERL-SEAELAERLGVSRTPVREALRRLEAEGLVEIRPNRGARVaplspE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178  78 NIWDaagpnIIETLIALDMQSAPLIIDNMlslrskmsesyiyeavknspqkSTALFAELEQLQN------TAQDYTEFdY 151
Cdd:COG1802   81 EIRE-----LYEVRAALEGLAARLAAERA----------------------TPADLARLRALLEeleaaaAAGDVAAY-L 132

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178 152 QLFRQF--TVVA---NkpfyRLIFNSLKGVYQRIGLLFFKEKKHRELTKQFYLEMQQI---CLEGNADAVVDCIRKHNLR 223
Cdd:COG1802  133 ELDREFhrALVEaagN----PRLAELLRRLRARLRRYRRLSLRSPGRLEESLAEHRAIldaLEAGDAEAAAAALRAHLER 208

                        250
                 ....*....|....
gi 491899178 224 SSTYWKAILERLPQ 237
Cdd:COG1802  209 ARERLLEALAAAAA 222
MngR COG2188
DNA-binding transcriptional regulator, GntR family [Transcription];
18-77 1.10e-11

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


Pssm-ID: 441791 [Multi-domain]  Cd Length: 238  Bit Score: 62.57  E-value: 1.10e-11
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178  18 EEYIVKSIWQDVFPSGSNLPSERDLADKIGVTRTTLREVLQRLARDGWLTIQHGKPTKVN 77
Cdd:COG2188   11 ADALRERIESGELPPGDRLPSERELAEEFGVSRMTVRKALDELVEEGLLERRQGRGTFVA 70
PRK03837 PRK03837
transcriptional regulator NanR; Provisional
 30-230 4.80e-10

transcriptional regulator NanR; Provisional


Pssm-ID: 235166 [Multi-domain]  Cd Length: 241  Bit Score: 57.72  E-value: 4.80e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178  30 FPSGSNLPSERDLADKIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNniwDAAGPNIIETL--IALDMQSA-PLIIDNM 106
Cdd:PRK03837  31 FGPGDQLPSERELMAFFGVGRPAVREALQALKRKGLVQISHGERARVS---RPSADTIIGQLsgMAKDFLSQsPDGLAHL 107

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178 107 LSLRSkMSESYI--YEAVKNSPQKSTALFAELEQLQNTAQDYTEF---DYQLFRQFTVVANKPFYRLIFNSLkgvyqrig 181
Cdd:PRK03837 108 KQARL-FFESSLarYAAEHATDEQIALLRKALERNSQSLGDNAAFirsDMEFHRVIAEIPGNPIFMAIHEAL-------- 178

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 491899178 182 LLFFKEKKH-----RELTKQFYLEMQQI--CLE-GNADAVVDCIRKHNLRSSTYWKA 230
Cdd:PRK03837 179 LDWLIEARPevvilHGHENVTLQEHIAIvdAIRaHDPDEADRALQSHLNRVSALYHA 235
ARO8 COG1167
DNA-binding transcriptional regulator, MocR family, contains an aminotransferase domain ...
 8-78 4.61e-08

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: 52.91  E-value: 4.61e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 491899178   8 LKAQSPAALAE---EYIVKSIWQDVFPSGSNLPSERDLADKIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNN 78
Cdd:COG1167    5 LDRDSSGPLYLqlaDALREAILSGRLPPGDRLPSSRELAAQLGVSRSTVVRAYEELEAEGLIESRPGSGTFVAA 78
PRK11402 PRK11402
transcriptional regulator PhoB;
21-76 5.44e-07

transcriptional regulator PhoB;


Pssm-ID: 183118 [Multi-domain]  Cd Length: 241  Bit Score: 49.06  E-value: 5.44e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 491899178  21 IVKSIWQDVFPSGSNLPSERDLADKIGVTRTTLREVLQRLARDGWLTIQHGKPTKV 76
Cdd:PRK11402  18 LLDDIAQGVYQAGQQIPTENELCTQYNVSRITIRKAISDLVADGVLIRWQGKGTFV 73
PRK10421 PRK10421
DNA-binding transcriptional repressor LldR; Provisional
 32-76 8.19e-07

DNA-binding transcriptional repressor LldR; Provisional


Pssm-ID: 236690 [Multi-domain]  Cd Length: 253  Bit Score: 48.61  E-value: 8.19e-07
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 491899178  32 SGSNLPSERDLADKIGVTRTTLREVLQRLARDGWLTIQHGKPTKV 76
Cdd:PRK10421  22 AGMKLPAERQLAMQLGVSRNSLREALAKLVSEGVLLSRRGGGTFI 66
PRK09990 PRK09990
DNA-binding transcriptional regulator GlcC; Provisional
 19-79 8.66e-07

DNA-binding transcriptional regulator GlcC; Provisional


Pssm-ID: 182186 [Multi-domain]  Cd Length: 251  Bit Score: 48.61  E-value: 8.66e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 491899178  19 EYIVKSIWQDVFPSGSNLPSERDLADKIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNNI 79
Cdd:PRK09990  14 ERIERLIVDGVLKVGQALPSERRLCEKLGFSRSALREGLTVLRGRGIIETAQGRGSFVARL 74
trehalos_R_Bsub TIGR02404
trehalose operon repressor, B. subtilis-type; This family consists of repressors of the GntR ...
 21-78 6.08e-06

trehalose operon repressor, B. subtilis-type; This family consists of repressors of the GntR family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gram-positive lineages and does not include the TreR from E. coli. [Regulatory functions, DNA interactions]


Pssm-ID: 274116 [Multi-domain]  Cd Length: 233  Bit Score: 45.82  E-value: 6.08e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 491899178   21 IVKSIWQDVFPSGSNLPSERDLADKIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNN 78
Cdd:TIGR02404   9 LEQKITKGQYKEGDYLPSEHELMDQYGASRETVRKALNLLTERGYIQKIQGKGSIVLN 66
PRK10225 PRK10225
Uxu operon transcriptional regulator;
10-89 1.16e-05

Uxu operon transcriptional regulator;


Pssm-ID: 182318 [Multi-domain]  Cd Length: 257  Bit Score: 45.40  E-value: 1.16e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178  10 AQSPAALAEEYIVKSIWQDVFPSGSNLPSERDLADKIGVTRTTLREVLQRLARDGWLTIQHGKPTKVnniWDAAGPNIIE 89
Cdd:PRK10225   7 AQRPYQEVGAMIRDLIIKTPYNPGERLPPEREIAEMLDVTRTVVREALIMLEIKGLVEVRRGAGIYV---LDSSGSHNTD 83
pdhR PRK09464
pyruvate dehydrogenase complex transcriptional repressor PdhR;
33-80 1.58e-05

pyruvate dehydrogenase complex transcriptional repressor PdhR;


Pssm-ID: 181879 [Multi-domain]  Cd Length: 254  Bit Score: 44.63  E-value: 1.58e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 491899178  33 GSNLPSERDLADKIGVTRTTLREVLQRLARDGWLTIQHGKPTKV-NNIW 80
Cdd:PRK09464  31 GEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVqSSLW 79
C_P_lyase_phnF TIGR02325
phosphonates metabolism transcriptional regulator PhnF; All members of the seed alignment for ...
 18-76 3.71e-05

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: 43.62  E-value: 3.71e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 491899178   18 EEYIVKSIWQDVFPSGSNLPSERDLADKIGVTRTTLREVLQRLARDGWLTIQHGKPTKV 76
Cdd:TIGR02325  14 ADKIEQEIAAGHLRAGDYLPAEMQLAERFGVNRHTVRRAIAALVERGLLRAEQGRGTFV 72
YhcF COG1725
DNA-binding transcriptional regulator YhcF, GntR family [Transcription];
19-109 5.25e-05

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


Pssm-ID: 441331 [Multi-domain]  Cd Length: 114  Bit Score: 41.32  E-value: 5.25e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491899178  19 EYIVKSIWQDVFPSGSNLPSERDLADKIGVTRTTLREVLQRLARDGWLTIQHGKPTKVnniwdAAGPNIIETLIALDM-- 96
Cdd:COG1725   17 DQIKEAIASGELKPGDRLPSVRELAAELGVNPNTVAKAYRELEDEGLIETRRGKGTFV-----AEDARELLEERREEFle 91

                         90
                 ....*....|...
gi 491899178  97 QSAPLIIDNMLSL 109
Cdd:COG1725   92 EALRELVAEARRL 104
HTH_CRP smart00419
helix_turn_helix, cAMP Regulatory protein;
38-72 1.36e-04

helix_turn_helix, cAMP Regulatory protein;


Pssm-ID: 128696 [Multi-domain]  Cd Length: 48  Bit Score: 38.58  E-value: 1.36e-04
                           10        20        30
                   ....*....|....*....|....*....|....*
gi 491899178    38 SERDLADKIGVTRTTLREVLQRLARDGWLTIQHGK 72
Cdd:smart00419  10 TRQEIAELLGLTRETVSRTLKRLEKEGLISREGGR 44
YrhO COG1378
Sugar-specific transcriptional regulator TrmB [Transcription];
40-75 1.76e-04

Sugar-specific transcriptional regulator TrmB [Transcription];


Pssm-ID: 440988 [Multi-domain]  Cd Length: 238  Bit Score: 41.54  E-value: 1.76e-04
                         10        20        30
                 ....*....|....*....|....*....|....*.
gi 491899178  40 RDLADKIGVTRTTLREVLQRLARDGWLTIQHGKPTK 75
Cdd:COG1378   31 SELAKASGVPRSRVYDVLESLEEKGLVEVSEGRPKR 66
TrmB pfam01978
Sugar-specific transcriptional regulator TrmB; One member of this family, TrmB, has been shown ...
 40-75 3.71e-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: 37.89  E-value: 3.71e-04
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 491899178   40 RDLADKIGVTRTTLREVLQRLARDGWLTIQHGKPTK 75
Cdd:pfam01978  26 DEIAEESGVPRSKVYEVLRSLEDKGLVEREKGRPKK 61
LexA COG1974
SOS-response transcriptional repressor LexA (RecA-mediated autopeptidase) [Transcription, ...
 19-79 7.45e-04

SOS-response transcriptional repressor LexA (RecA-mediated autopeptidase) [Transcription, Signal transduction mechanisms];


Pssm-ID: 441577 [Multi-domain]  Cd Length: 199  Bit Score: 39.51  E-value: 7.45e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 491899178  19 EYIVKSIWQDVFPsgsnlPSERDLADKIGVTRTTLREVLQRLARDGWLTIQHGKPTKVNNI 79
Cdd:COG1974   13 DFIKEYIRERGYP-----PSQREIAEALGLSSSAVHRHLKALEKKGYLRRDPGKSRAIELL 68
PRK10079 PRK10079
phosphonate metabolism transcriptional regulator PhnF; Provisional
 27-71 1.94e-03

phosphonate metabolism transcriptional regulator PhnF; Provisional


Pssm-ID: 182227 [Multi-domain]  Cd Length: 241  Bit Score: 38.60  E-value: 1.94e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 491899178  27 QDVFPSGSNLPSERDLADKIGVTRTTLREVLQRLARDGWLTIQHG 71
Cdd:PRK10079  26 RQHYRCGDYLPAEQQLAARYEVNRHTLRRAIDQLVEKGWVQRRQG 70
PRK11523 PRK11523
transcriptional regulator ExuR;
25-71 2.86e-03

transcriptional regulator ExuR;


Pssm-ID: 183176 [Multi-domain]  Cd Length: 253  Bit Score: 37.90  E-value: 2.86e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 491899178  25 IWQDVFPSGSNLPSERDLADKIGVTRTTLREVLQRLARDGWLTIQHG 71
Cdd:PRK11523  21 IEQGVYLVGDKLPAERFIADEKNVSRTVVREAIIMLEVEGYVEVRKG 67
COG2345 COG2345
Predicted transcriptional regulator, ArsR family [Transcription];
41-76 4.72e-03

Predicted transcriptional regulator, ArsR family [Transcription];


Pssm-ID: 441914 [Multi-domain]  Cd Length: 217  Bit Score: 37.21  E-value: 4.72e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 491899178  41 DLADKIGVTRTTLREVLQRLARDGWLTIQH-----GKPTKV 76
Cdd:COG2345   32 ELAEALGLTPNAVRRHLDALEEEGLVERETerrgrGRPAKL 72
Crp COG0664
cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal ...
 41-72 8.74e-03

cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms];


Pssm-ID: 440428 [Multi-domain]  Cd Length: 207  Bit Score: 36.12  E-value: 8.74e-03
                         10        20        30
                 ....*....|....*....|....*....|..
gi 491899178  41 DLADKIGVTRTTLREVLQRLARDGWLTIQHGK 72
Cdd:COG0664  163 EIASYLGLTRETVSRILKKLEKEGLIELERGR 194
 
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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