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Conserved domains on  [gi|501073888|ref|WP_012124825|]
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MULTISPECIES: GntR family transcriptional regulator [Cronobacter]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK11414 super family cl32689
GntR family transcriptional regulator;
1-218 4.01e-80

GntR family transcriptional regulator;


The actual alignment was detected with superfamily member PRK11414:

Pssm-ID: 183126 [Multi-domain]  Cd Length: 221  Bit Score: 238.62  E-value: 4.01e-80
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073888   1 MLDLEKAQRLSLTMQVEVRLKNALIVGSLRPGARLVTKEIADQLGISITPVREALLRLVSSGALNATPAQAFLVPEISEA 80
Cdd:PRK11414   1 MPGTEKTQHISLTLQVENDLKHQLSIGALKPGARLITKNLAEQLGMSITPVREALLRLVSVNALSVAPAQAFTVPEVSKR 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073888  81 RYDEVTKIRKNLEGMAAEAAAKNMTPARMAHLRELCDAFREAKMSDSVEQALQANRAFRFQLYNWAEMPTLVSLIEQLWM 160
Cdd:PRK11414  81 QLDEINRIRYELELMAVALAVENLTPQDLAELQELLEKLQQAQEKGDMEQIINANRLFRLAIYHRSNMPILCEMIEQLWV 160

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073888 161 RIGPCFNYLYP--QSDDFVRGHHNYDDLLEALEAGDGEAAARAVHKAINDGALILKKQYF 218
Cdd:PRK11414 161 RMGPSLHYLYEaiNPAELREHIENYRLLLAALKAKDKEGCRHCLAEIMQQNVAILYQQYN 220
 
Name Accession Description Interval E-value
PRK11414 PRK11414
GntR family transcriptional regulator;
1-218 4.01e-80

GntR family transcriptional regulator;


Pssm-ID: 183126 [Multi-domain]  Cd Length: 221  Bit Score: 238.62  E-value: 4.01e-80
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073888   1 MLDLEKAQRLSLTMQVEVRLKNALIVGSLRPGARLVTKEIADQLGISITPVREALLRLVSSGALNATPAQAFLVPEISEA 80
Cdd:PRK11414   1 MPGTEKTQHISLTLQVENDLKHQLSIGALKPGARLITKNLAEQLGMSITPVREALLRLVSVNALSVAPAQAFTVPEVSKR 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073888  81 RYDEVTKIRKNLEGMAAEAAAKNMTPARMAHLRELCDAFREAKMSDSVEQALQANRAFRFQLYNWAEMPTLVSLIEQLWM 160
Cdd:PRK11414  81 QLDEINRIRYELELMAVALAVENLTPQDLAELQELLEKLQQAQEKGDMEQIINANRLFRLAIYHRSNMPILCEMIEQLWV 160

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073888 161 RIGPCFNYLYP--QSDDFVRGHHNYDDLLEALEAGDGEAAARAVHKAINDGALILKKQYF 218
Cdd:PRK11414 161 RMGPSLHYLYEaiNPAELREHIENYRLLLAALKAKDKEGCRHCLAEIMQQNVAILYQQYN 220
GntR COG1802
DNA-binding transcriptional regulator, GntR family [Transcription];
1-204 2.47e-49

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


Pssm-ID: 441407 [Multi-domain]  Cd Length: 222  Bit Score: 160.47  E-value: 2.47e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073888   1 MLDLEKAQRLSLTMQVEVRLKNALIVGSLRPGARLVTKEIADQLGISITPVREALLRLVSSGALNATPAQAFLVPEISEA 80
Cdd:COG1802    1 MTSPSPLRRESLAEQVYEALREAILSGELPPGERLSEAELAERLGVSRTPVREALRRLEAEGLVEIRPNRGARVAPLSPE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073888  81 RYDEVTKIRKNLEGMAAEAAAKNMTPARMAHLRELCDAFREAKMSDSVEQALQANRAFRFQLYNWAEMPTLVSLIEQLWM 160
Cdd:COG1802   81 EIRELYEVRAALEGLAARLAAERATPADLARLRALLEELEAAAAAGDVAAYLELDREFHRALVEAAGNPRLAELLRRLRA 160

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....
gi 501073888 161 RIGPCFNYLYPQSDDFVRGHHNYDDLLEALEAGDGEAAARAVHK 204
Cdd:COG1802  161 RLRRYRRLSLRSPGRLEESLAEHRAILDALEAGDAEAAAAALRA 204
FCD smart00895
This entry represents the C-terminal ligand binding domain of many members of the GntR family; ...
 84-203 8.91e-18

This entry represents the C-terminal ligand binding domain of many members of the GntR family; This domain probably binds to a range of effector molecules that regulate the transcription of genes through the action of the N-terminal DNA-binding domain. This domain is found in and that are regulators of sugar biosynthesis operons. Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities. The HTH GntR family has many members distributed among diverse bacterial groups that regulate various biological processes. It was named GntR after the Bacillus subtilis repressor of the gluconate operon. In general, these proteins contain a DNA-binding HTH domain at the N terminus, and an effector binding or oligomerisation domain at the C terminus. The winged-helix DNA-binding domain is well conserved in structure for the whole of the GntR family, and is similar in structure to other transcriptional regulator families. The C-terminal effector-binding and oligomerisation domains are more variable and are consequently used to define the subfamilies. Based on the sequence and structure of the C-terminal domains, the GtnR family can be divided into four major groups, as represented by FadR, HutC, MocR and YtrA, as well as some minor groups such as those represented by AraR and PlmA.


Pssm-ID: 214892 [Multi-domain]  Cd Length: 123  Bit Score: 75.86  E-value: 8.91e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073888    84 EVTKIRKNLEGMAAEAAAKNMTPARMAHLRELCDAFREAKMS-DSVEQALQANRAFRFQLYNWAEMPTLVSLIEQLWMRI 162
Cdd:smart00895   1 ELYEVRRALEPLAARLAAERATDEDLAALEALLDAMEAAAAAgDDLEEFAELDREFHRALAEAAGNPVLLELLESLRARL 80

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|.
gi 501073888   163 GPCFNYLYPQSDDFVRGHHnydDLLEALEAGDGEAAARAVH 203
Cdd:smart00895  81 RRLRRLSLEAARRALDEHR---AILDAIRARDAEAARAAMR 118
FCD pfam07729
FCD domain; This domain is the C-terminal ligand binding domain of many members of the GntR ...
 84-203 3.53e-17

FCD domain; This domain is the C-terminal ligand binding domain of many members of the GntR family. This domain binds to a range of effector molecules, including Lactate, Zn(II), Ni(II), Ca(II), Mg(II), citrate, sugar acids, sialic acid and N-acetylglucosamine-6-P, that regulate the transcription of genes through the action of the N-terminal DNA-binding domain pfam00392 (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043). This domain is found in Swiss:P45427 and Swiss:P31460 that are regulators of sugar biosynthesis operons. It is also in the known structure of FadR where it binds to acyl-coA, the domain is alpha helical. This family has been named as FCD for (FadR C-terminal Domain).


Pssm-ID: 429623 [Multi-domain]  Cd Length: 121  Bit Score: 74.33  E-value: 3.53e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073888   84 EVTKIRKNLEGMAAEAAAKNMTPARMAHLRELCDAFREAKMSDSVEQALQANRAFRFQLYNWAEMPTLVSLIEQLWMRIG 163
Cdd:pfam07729   1 ELYELRAALEPLAARLAAERATDEDLAELEALLEALEAAADAGDLEAFAEADREFHLALAEAAGNPVLARMLESLWDRLR 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 501073888  164 PCFNYLYPQSDDFVRGHHNYDDLLEALEAGDGEAAARAVH 203
Cdd:pfam07729  81 RLRRLLLSSPGRLRASLEEHRAILDAIRARDPEAARAAMR 120
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 11-62 3.42e-09

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: 51.29  E-value: 3.42e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 501073888  11 SLTMQVEVRLKNALIVGSLRPGARLVT-KEIADQLGISITPVREALLRLVSSG 62
Cdd:cd07377    1 PLYEQIADQLREAILSGELKPGDRLPSeRELAEELGVSRTTVREALRELEAEG 53
 
Name Accession Description Interval E-value
PRK11414 PRK11414
GntR family transcriptional regulator;
1-218 4.01e-80

GntR family transcriptional regulator;


Pssm-ID: 183126 [Multi-domain]  Cd Length: 221  Bit Score: 238.62  E-value: 4.01e-80
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073888   1 MLDLEKAQRLSLTMQVEVRLKNALIVGSLRPGARLVTKEIADQLGISITPVREALLRLVSSGALNATPAQAFLVPEISEA 80
Cdd:PRK11414   1 MPGTEKTQHISLTLQVENDLKHQLSIGALKPGARLITKNLAEQLGMSITPVREALLRLVSVNALSVAPAQAFTVPEVSKR 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073888  81 RYDEVTKIRKNLEGMAAEAAAKNMTPARMAHLRELCDAFREAKMSDSVEQALQANRAFRFQLYNWAEMPTLVSLIEQLWM 160
Cdd:PRK11414  81 QLDEINRIRYELELMAVALAVENLTPQDLAELQELLEKLQQAQEKGDMEQIINANRLFRLAIYHRSNMPILCEMIEQLWV 160

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073888 161 RIGPCFNYLYP--QSDDFVRGHHNYDDLLEALEAGDGEAAARAVHKAINDGALILKKQYF 218
Cdd:PRK11414 161 RMGPSLHYLYEaiNPAELREHIENYRLLLAALKAKDKEGCRHCLAEIMQQNVAILYQQYN 220
GntR COG1802
DNA-binding transcriptional regulator, GntR family [Transcription];
1-204 2.47e-49

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


Pssm-ID: 441407 [Multi-domain]  Cd Length: 222  Bit Score: 160.47  E-value: 2.47e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073888   1 MLDLEKAQRLSLTMQVEVRLKNALIVGSLRPGARLVTKEIADQLGISITPVREALLRLVSSGALNATPAQAFLVPEISEA 80
Cdd:COG1802    1 MTSPSPLRRESLAEQVYEALREAILSGELPPGERLSEAELAERLGVSRTPVREALRRLEAEGLVEIRPNRGARVAPLSPE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073888  81 RYDEVTKIRKNLEGMAAEAAAKNMTPARMAHLRELCDAFREAKMSDSVEQALQANRAFRFQLYNWAEMPTLVSLIEQLWM 160
Cdd:COG1802   81 EIRELYEVRAALEGLAARLAAERATPADLARLRALLEELEAAAAAGDVAAYLELDREFHRALVEAAGNPRLAELLRRLRA 160

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....
gi 501073888 161 RIGPCFNYLYPQSDDFVRGHHNYDDLLEALEAGDGEAAARAVHK 204
Cdd:COG1802  161 RLRRYRRLSLRSPGRLEESLAEHRAILDALEAGDAEAAAAALRA 204
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
5-204 3.91e-26

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


Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 100.78  E-value: 3.91e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073888   5 EKAQRLSLTMQVEVRLKNALIVGSLRPGARLVT-KEIADQLGISITPVREALLRLVSSGAL----------NATPAQAFL 73
Cdd:COG2186    1 KPIRRRSLAEQVAEQLRELILSGELKPGDRLPSeRELAEQLGVSRTTVREALRALEALGLVevrqgggtfvREPSPWALL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073888  74 VP-----EISEARYDEVTKIRKNLEGMAAEAAAKNMTPARMAHLRELCDAFREAKmsDSVEQALQANRAFRFQLYNWAEM 148
Cdd:COG2186   81 DPlalllALDDASLRDLLEARLALEPEAARLAAERATDEDLARLEAALAEMEAAA--DDGEAFAEADLAFHRAIAEASGN 158

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 501073888 149 PTLVSLIEQLWMRIGPCFNYLYPQSDDFVRGHHNYDDLLEALEAGDGEAAARAVHK 204
Cdd:COG2186  159 PLLALLLESLRELLRRSVRLTLRSPEARERSLAEHRAILDAIRAGDPEAARAAMRA 214
FCD smart00895
This entry represents the C-terminal ligand binding domain of many members of the GntR family; ...
 84-203 8.91e-18

This entry represents the C-terminal ligand binding domain of many members of the GntR family; This domain probably binds to a range of effector molecules that regulate the transcription of genes through the action of the N-terminal DNA-binding domain. This domain is found in and that are regulators of sugar biosynthesis operons. Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities. The HTH GntR family has many members distributed among diverse bacterial groups that regulate various biological processes. It was named GntR after the Bacillus subtilis repressor of the gluconate operon. In general, these proteins contain a DNA-binding HTH domain at the N terminus, and an effector binding or oligomerisation domain at the C terminus. The winged-helix DNA-binding domain is well conserved in structure for the whole of the GntR family, and is similar in structure to other transcriptional regulator families. The C-terminal effector-binding and oligomerisation domains are more variable and are consequently used to define the subfamilies. Based on the sequence and structure of the C-terminal domains, the GtnR family can be divided into four major groups, as represented by FadR, HutC, MocR and YtrA, as well as some minor groups such as those represented by AraR and PlmA.


Pssm-ID: 214892 [Multi-domain]  Cd Length: 123  Bit Score: 75.86  E-value: 8.91e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073888    84 EVTKIRKNLEGMAAEAAAKNMTPARMAHLRELCDAFREAKMS-DSVEQALQANRAFRFQLYNWAEMPTLVSLIEQLWMRI 162
Cdd:smart00895   1 ELYEVRRALEPLAARLAAERATDEDLAALEALLDAMEAAAAAgDDLEEFAELDREFHRALAEAAGNPVLLELLESLRARL 80

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|.
gi 501073888   163 GPCFNYLYPQSDDFVRGHHnydDLLEALEAGDGEAAARAVH 203
Cdd:smart00895  81 RRLRRLSLEAARRALDEHR---AILDAIRARDAEAARAAMR 118
FCD pfam07729
FCD domain; This domain is the C-terminal ligand binding domain of many members of the GntR ...
 84-203 3.53e-17

FCD domain; This domain is the C-terminal ligand binding domain of many members of the GntR family. This domain binds to a range of effector molecules, including Lactate, Zn(II), Ni(II), Ca(II), Mg(II), citrate, sugar acids, sialic acid and N-acetylglucosamine-6-P, that regulate the transcription of genes through the action of the N-terminal DNA-binding domain pfam00392 (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043). This domain is found in Swiss:P45427 and Swiss:P31460 that are regulators of sugar biosynthesis operons. It is also in the known structure of FadR where it binds to acyl-coA, the domain is alpha helical. This family has been named as FCD for (FadR C-terminal Domain).


Pssm-ID: 429623 [Multi-domain]  Cd Length: 121  Bit Score: 74.33  E-value: 3.53e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073888   84 EVTKIRKNLEGMAAEAAAKNMTPARMAHLRELCDAFREAKMSDSVEQALQANRAFRFQLYNWAEMPTLVSLIEQLWMRIG 163
Cdd:pfam07729   1 ELYELRAALEPLAARLAAERATDEDLAELEALLEALEAAADAGDLEAFAEADREFHLALAEAAGNPVLARMLESLWDRLR 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 501073888  164 PCFNYLYPQSDDFVRGHHNYDDLLEALEAGDGEAAARAVH 203
Cdd:pfam07729  81 RLRRLLLSSPGRLRASLEEHRAILDAIRARDPEAARAAMR 120
GntR pfam00392
Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the ...
 12-74 2.53e-10

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: 54.54  E-value: 2.53e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 501073888   12 LTMQVEVRLKNALIVGSLRPGARLVT-KEIADQLGISITPVREALLRLVSSGALNATPAQAFLV 74
Cdd:pfam00392   1 LYEQVYARLREDILSGRLRPGDKLPSeRELAAEFGVSRTTVREALRRLEAEGLVERRQGRGTFV 64
pdhR PRK09464
pyruvate dehydrogenase complex transcriptional repressor PdhR;
16-203 3.38e-10

pyruvate dehydrogenase complex transcriptional repressor PdhR;


Pssm-ID: 181879 [Multi-domain]  Cd Length: 254  Bit Score: 58.11  E-value: 3.38e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073888  16 VEVRLKNALIVGSLRPGARLV-TKEIADQLGISITPVREALLRLVSSGAL----------NATPAQAF------LVPEIS 78
Cdd:PRK09464  15 IEQQLEFLILEGTLRPGEKLPpERELAKQFDVSRPSLREAIQRLEAKGLLlrrqgggtfvQSSLWQSFsdplveLLSDHP 94

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073888  79 EARYDeVTKIRKNLEGMAAEAAAKNMTPARMAHLRELCDAFREAKMSDSVEQalQANRAFRFQL------YNWAEMPTLV 152
Cdd:PRK09464  95 ESQFD-LLETRHALEGIAAYYAALRGTDEDFERIRECHHAIELAQQSGDLDA--EANAVMQYQIavteaaHNVVLLHLLR 171

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|.
gi 501073888 153 SLIEQLWMRIGPCFNYLYPQSDDFVRGHHNYDDLLEALEAGDGEAAARAVH 203
Cdd:PRK09464 172 CMEPMLEQNVRQNFELLYRRREMLPKVSSHRARIFEAIVAGKPEKAREASH 222
HTH_GNTR smart00345
helix_turn_helix gluconate operon transcriptional repressor;
16-74 4.77e-10

helix_turn_helix gluconate operon transcriptional repressor;


Pssm-ID: 197669 [Multi-domain]  Cd Length: 60  Bit Score: 53.73  E-value: 4.77e-10
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073888    16 VEVRLKNALIVGSLRPGARLVT-KEIADQLGISITPVREALLRLVSSGALNATPAQAFLV 74
Cdd:smart00345   1 VAERLREDIVSGELRPGDKLPSeRELAAQLGVSRTTVREALSRLEAEGLVQRRPGSGTFV 60
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 11-62 3.42e-09

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: 51.29  E-value: 3.42e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 501073888  11 SLTMQVEVRLKNALIVGSLRPGARLVT-KEIADQLGISITPVREALLRLVSSG 62
Cdd:cd07377    1 PLYEQIADQLREAILSGELKPGDRLPSeRELAEELGVSRTTVREALRELEAEG 53
PRK10421 PRK10421
DNA-binding transcriptional repressor LldR; Provisional
 15-202 2.39e-08

DNA-binding transcriptional repressor LldR; Provisional


Pssm-ID: 236690 [Multi-domain]  Cd Length: 253  Bit Score: 52.85  E-value: 2.39e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073888  15 QVEVRLKnALIVGS-LRPGARLVT-KEIADQLGISITPVREALLRLVSSGALNAT--------------PAQAFLVP--- 75
Cdd:PRK10421   6 EVADRVR-ALIEEKnLEAGMKLPAeRQLAMQLGVSRNSLREALAKLVSEGVLLSRrgggtfirwrhetwSEQNIVQPlkt 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073888  76 ---EISEARYDeVTKIRKNLEGMAAEAAAKNMTPARMAHLReLCdaFrEAKMSDSVEQALQANraFRFQL------YNWA 146
Cdd:PRK10421  85 lmaDDPDYSFD-ILEARHAIEASTAWHAAMRATPGDKEKIQ-LC--F-EATLSEDPDLASQAD--VRFHLaiaeasHNVV 157

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 501073888 147 EMPTLVSLIE--QLWMRIGPCFNYLYPQSDDFVRGHHNydDLLEALEAGDGEAAARAV 202
Cdd:PRK10421 158 LLQTMRGFFDvlQSSVKQSRQRMYLVPPVFSQLTEQHQ--AVMDAILAGDAEGARKAM 213
PRK11534 PRK11534
DNA-binding transcriptional regulator CsiR; Provisional
 19-100 1.72e-06

DNA-binding transcriptional regulator CsiR; Provisional


Pssm-ID: 183181 [Multi-domain]  Cd Length: 224  Bit Score: 47.20  E-value: 1.72e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073888  19 RLKNALIVGSLRPGARLVTKEIADQLGISITPVREALLRLVSSGALNATPAQAFLVPEISEARYDEVTKIRKNLEGMAAE 98
Cdd:PRK11534  15 WLKNDIIRGNFQPDEKLRMSLLTSRYALGVGPLREALSQLVAERLVTVVNQKGYRVASMSEQELLDIFDARANMEAMLVS 94


                 ..
gi 501073888  99 AA 100
Cdd:PRK11534  95 LA 96
ARO8 COG1167
DNA-binding transcriptional regulator, MocR family, contains an aminotransferase domain ...
 1-68 6.59e-05

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: 42.89  E-value: 6.59e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 501073888   1 MLDLEKAQRLSLTMQVEVRLKNALIVGSLRPGARLVTK-EIADQLGISITPVREALLRLVSSGALNATP 68
Cdd:COG1167    2 LIRLDRDSSGPLYLQLADALREAILSGRLPPGDRLPSSrELAAQLGVSRSTVVRAYEELEAEGLIESRP 70
PRK10225 PRK10225
Uxu operon transcriptional regulator;
15-159 1.16e-03

Uxu operon transcriptional regulator;


Pssm-ID: 182318 [Multi-domain]  Cd Length: 257  Bit Score: 38.85  E-value: 1.16e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073888  15 QVEVRLKNALIVGSLRPGARLV-TKEIADQLGISITPVREALLRLVSSGALNATPAQAFLVPEIS--------------E 79
Cdd:PRK10225  13 EVGAMIRDLIIKTPYNPGERLPpEREIAEMLDVTRTVVREALIMLEIKGLVEVRRGAGIYVLDSSgshntdspdanvcnD 92

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073888  80 ARYDEVTKIRKNLEGMAAEAAAKNMTPARMAHLRELCDAFREAKMSDSVEQALQANRAFRFQLYNWAEMPTLVSLIEQLW 159
Cdd:PRK10225  93 AGPFELLQARQLLESNIAEFAALQATREDIVKMRQALQLEERELASSAPGSSESGDMQFHLAIAEATHNSMLVELFRQSW 172
MngR COG2188
DNA-binding transcriptional regulator, GntR family [Transcription];
9-62 2.09e-03

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


Pssm-ID: 441791 [Multi-domain]  Cd Length: 238  Bit Score: 37.92  E-value: 2.09e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 501073888   9 RLSLTMQVEVRLKNALIVGSLRPGARLVT-KEIADQLGISITPVREALLRLVSSG 62
Cdd:COG2188    3 PVPLYLQIADALRERIESGELPPGDRLPSeRELAEEFGVSRMTVRKALDELVEEG 57
HTH_24 pfam13412
Winged helix-turn-helix DNA-binding;
33-62 8.83e-03

Winged helix-turn-helix DNA-binding;


Pssm-ID: 404317 [Multi-domain]  Cd Length: 45  Bit Score: 33.18  E-value: 8.83e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 501073888   33 ARLVTKEIADQLGISITPVREALLRLVSSG 62
Cdd:pfam13412  14 PRISQRELAERLGLSPSTVNRRLKRLEEEG 43
 
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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