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Conserved domains on  [gi|2111010925|ref|WP_225869701|]
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L-lactate utilization/bacilysin biosynthesis transcriptional regulator LutR [Bacillus subtilis]

Protein Classification

FadR/GntR family transcriptional regulator( domain architecture ID 11450686)

helix-turn-helix transcriptional regulator belonging to the GntR family, which contains FadR, HutC, MocR, YtrA, AraR, PlmA, and many other subfamilies

CATH:  1.10.10.10
Gene Ontology:  GO:0003677|GO:0003700
PubMed:  2060763
SCOP:  4000155

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
1-228 2.24e-74

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


:

Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 224.81  E-value: 2.24e-74
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925   1 MYEEVADALLDMIKNGELKPGDKLDSVQALAESFQVSRSAVREALSALKAMGLVEMKQGEGTYLKEFELNQISQPLSAAL 80
Cdd:COG2186     8 LAEQVAEQLRELILSGELKPGDRLPSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVREPSPWALLDPLALLL 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925  81 LMKKEDVKQLLEVRKLLEIGVASLAAEKRTEADLERIQDALKEMGSIEADGELGEKADFAFHLALADASQNELLKHLMNH 160
Cdd:COG2186    88 ALDDASLRDLLEARLALEPEAARLAAERATDEDLARLEAALAEMEAAADDGEAFAEADLAFHRAIAEASGNPLLALLLES 167

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2111010925 161 VSSLLLETMRETrkiwlFSKKTSVQRLYEEHERIYNAVAAGNGAQAEAAMLAHLTNVEDVLSGYFEEN 228
Cdd:COG2186   168 LRELLRRSVRLT-----LRSPEARERSLAEHRAILDAIRAGDPEAARAAMRAHLEAVRERLREALAER 230
 
Name Accession Description Interval E-value
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
1-228 2.24e-74

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


Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 224.81  E-value: 2.24e-74
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925   1 MYEEVADALLDMIKNGELKPGDKLDSVQALAESFQVSRSAVREALSALKAMGLVEMKQGEGTYLKEFELNQISQPLSAAL 80
Cdd:COG2186     8 LAEQVAEQLRELILSGELKPGDRLPSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVREPSPWALLDPLALLL 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925  81 LMKKEDVKQLLEVRKLLEIGVASLAAEKRTEADLERIQDALKEMGSIEADGELGEKADFAFHLALADASQNELLKHLMNH 160
Cdd:COG2186    88 ALDDASLRDLLEARLALEPEAARLAAERATDEDLARLEAALAEMEAAADDGEAFAEADLAFHRAIAEASGNPLLALLLES 167

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2111010925 161 VSSLLLETMRETrkiwlFSKKTSVQRLYEEHERIYNAVAAGNGAQAEAAMLAHLTNVEDVLSGYFEEN 228
Cdd:COG2186   168 LRELLRRSVRLT-----LRSPEARERSLAEHRAILDAIRAGDPEAARAAMRAHLEAVRERLREALAER 230
PRK10421 PRK10421
DNA-binding transcriptional repressor LldR; Provisional
 3-227 1.02e-36

DNA-binding transcriptional repressor LldR; Provisional


Pssm-ID: 236690 [Multi-domain]  Cd Length: 253  Bit Score: 129.50  E-value: 1.02e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925   3 EEVADALLDMIKNGELKPGDKLDSVQALAESFQVSRSAVREALSALKAMGLVEMKQGEGTYLK----EFELNQISQPLSA 78
Cdd:PRK10421    5 DEVADRVRALIEEKNLEAGMKLPAERQLAMQLGVSRNSLREALAKLVSEGVLLSRRGGGTFIRwrheTWSEQNIVQPLKT 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925  79 ALLMKKEDVKQLLEVRKLLEIGVASLAAEKRTEADLERIQDALKEMGSieADGELGEKADFAFHLALADASQNELLKHLM 158
Cdd:PRK10421   85 LMADDPDYSFDILEARHAIEASTAWHAAMRATPGDKEKIQLCFEATLS--EDPDLASQADVRFHLAIAEASHNVVLLQTM 162

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2111010925 159 NHVSSLLLETMRETRKIwLFSKKTSVQRLYEEHERIYNAVAAGNGAQAEAAMLAHLTNVEDVLSGYFEE 227
Cdd:PRK10421  163 RGFFDVLQSSVKQSRQR-MYLVPPVFSQLTEQHQAVMDAILAGDAEGARKAMMAHLSFVHTTIKRFDED 230
FCD smart00895
This entry represents the C-terminal ligand binding domain of many members of the GntR family; ...
 89-216 6.76e-25

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: 94.73  E-value: 6.76e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925   89 QLLEVRKLLEIGVASLAAEKRTEADLERIQDALKEMGSIEADGELGE---KADFAFHLALADASQNELLKHLMNHVSSLL 165
Cdd:smart00895   1 ELYEVRRALEPLAARLAAERATDEDLAALEALLDAMEAAAAAGDDLEefaELDREFHRALAEAAGNPVLLELLESLRARL 80

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|.
gi 2111010925  166 LETMRETRKIWlfskktsvQRLYEEHERIYNAVAAGNGAQAEAAMLAHLTN 216
Cdd:smart00895  81 RRLRRLSLEAA--------RRALDEHRAILDAIRARDAEAARAAMREHLEA 123
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 2-65 8.62e-23

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: 87.50  E-value: 8.62e-23
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2111010925   2 YEEVADALLDMIKNGELKPGDKLDSVQALAESFQVSRSAVREALSALKAMGLVEMKQGEGTYLK 65
Cdd:cd07377     3 YEQIADQLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFVA 66
FCD pfam07729
FCD domain; This domain is the C-terminal ligand binding domain of many members of the GntR ...
 89-212 4.08e-21

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: 84.73  E-value: 4.08e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925  89 QLLEVRKLLEIGVASLAAEKRTEADLERIQDALKEMGSIEADGELGE--KADFAFHLALADASQNELLKHLMNHVSSLLL 166
Cdd:pfam07729   1 ELYELRAALEPLAARLAAERATDEDLAELEALLEALEAAADAGDLEAfaEADREFHLALAEAAGNPVLARMLESLWDRLR 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 2111010925 167 ETMRetrkiWLFSKKTSVQRLYEEHERIYNAVAAGNGAQAEAAMLA 212
Cdd:pfam07729  81 RLRR-----LLLSSPGRLRASLEEHRAILDAIRARDPEAARAAMRR 121
 
Name Accession Description Interval E-value
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
1-228 2.24e-74

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


Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 224.81  E-value: 2.24e-74
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925   1 MYEEVADALLDMIKNGELKPGDKLDSVQALAESFQVSRSAVREALSALKAMGLVEMKQGEGTYLKEFELNQISQPLSAAL 80
Cdd:COG2186     8 LAEQVAEQLRELILSGELKPGDRLPSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVREPSPWALLDPLALLL 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925  81 LMKKEDVKQLLEVRKLLEIGVASLAAEKRTEADLERIQDALKEMGSIEADGELGEKADFAFHLALADASQNELLKHLMNH 160
Cdd:COG2186    88 ALDDASLRDLLEARLALEPEAARLAAERATDEDLARLEAALAEMEAAADDGEAFAEADLAFHRAIAEASGNPLLALLLES 167

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2111010925 161 VSSLLLETMRETrkiwlFSKKTSVQRLYEEHERIYNAVAAGNGAQAEAAMLAHLTNVEDVLSGYFEEN 228
Cdd:COG2186   168 LRELLRRSVRLT-----LRSPEARERSLAEHRAILDAIRAGDPEAARAAMRAHLEAVRERLREALAER 230
GntR COG1802
DNA-binding transcriptional regulator, GntR family [Transcription];
3-227 7.03e-41

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


Pssm-ID: 441407 [Multi-domain]  Cd Length: 222  Bit Score: 139.29  E-value: 7.03e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925   3 EEVADALLDMIKNGELKPGDKLdSVQALAESFQVSRSAVREALSALKAMGLVEMKQGEGTYLKEFELnqisqplsaallm 82
Cdd:COG1802    14 EQVYEALREAILSGELPPGERL-SEAELAERLGVSRTPVREALRRLEAEGLVEIRPNRGARVAPLSP------------- 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925  83 kkEDVKQLLEVRKLLEIGVASLAAEKRTEADLERIQDALKEMGSIEADGELGE--KADFAFHLALADASQNELLKHLMNH 160
Cdd:COG1802    80 --EEIRELYEVRAALEGLAARLAAERATPADLARLRALLEELEAAAAAGDVAAylELDREFHRALVEAAGNPRLAELLRR 157

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2111010925 161 VSSLLLETMRETrkiwlFSKKTSVQRLYEEHERIYNAVAAGNGAQAEAAMLAHLTNVEDVLSGYFEE 227
Cdd:COG1802   158 LRARLRRYRRLS-----LRSPGRLEESLAEHRAILDALEAGDAEAAAAALRAHLERARERLLEALAA 219
PRK10421 PRK10421
DNA-binding transcriptional repressor LldR; Provisional
 3-227 1.02e-36

DNA-binding transcriptional repressor LldR; Provisional


Pssm-ID: 236690 [Multi-domain]  Cd Length: 253  Bit Score: 129.50  E-value: 1.02e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925   3 EEVADALLDMIKNGELKPGDKLDSVQALAESFQVSRSAVREALSALKAMGLVEMKQGEGTYLK----EFELNQISQPLSA 78
Cdd:PRK10421    5 DEVADRVRALIEEKNLEAGMKLPAERQLAMQLGVSRNSLREALAKLVSEGVLLSRRGGGTFIRwrheTWSEQNIVQPLKT 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925  79 ALLMKKEDVKQLLEVRKLLEIGVASLAAEKRTEADLERIQDALKEMGSieADGELGEKADFAFHLALADASQNELLKHLM 158
Cdd:PRK10421   85 LMADDPDYSFDILEARHAIEASTAWHAAMRATPGDKEKIQLCFEATLS--EDPDLASQADVRFHLAIAEASHNVVLLQTM 162

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2111010925 159 NHVSSLLLETMRETRKIwLFSKKTSVQRLYEEHERIYNAVAAGNGAQAEAAMLAHLTNVEDVLSGYFEE 227
Cdd:PRK10421  163 RGFFDVLQSSVKQSRQR-MYLVPPVFSQLTEQHQAVMDAILAGDAEGARKAMMAHLSFVHTTIKRFDED 230
PRK03837 PRK03837
transcriptional regulator NanR; Provisional
 1-217 9.44e-35

transcriptional regulator NanR; Provisional


Pssm-ID: 235166 [Multi-domain]  Cd Length: 241  Bit Score: 123.98  E-value: 9.44e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925   1 MYEEVADALLDMIKNGELKPGDKLDSVQALAESFQVSRSAVREALSALKAMGLVEMKQGEGTYLKEFELNQISQPLSAA- 79
Cdd:PRK03837   14 LSEEVEERLEQMIRSGEFGPGDQLPSERELMAFFGVGRPAVREALQALKRKGLVQISHGERARVSRPSADTIIGQLSGMa 93

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925  80 --LLMKKED-VKQLLEVRKLLEIGVASLAAEKRTEADLERIQDALKEMGSIEADGELGEKADFAFHLALADASQNEllkh 156
Cdd:PRK03837   94 kdFLSQSPDgLAHLKQARLFFESSLARYAAEHATDEQIALLRKALERNSQSLGDNAAFIRSDMEFHRVIAEIPGNP---- 169

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2111010925 157 LMNHVSSLLLETMRETRK---IWLFSKKTSvqrlYEEHERIYNAVAAGNGAQAEAAMLAHLTNV 217
Cdd:PRK03837  170 IFMAIHEALLDWLIEARPevvILHGHENVT----LQEHIAIVDAIRAHDPDEADRALQSHLNRV 229
pdhR PRK09464
pyruvate dehydrogenase complex transcriptional repressor PdhR;
12-221 4.17e-31

pyruvate dehydrogenase complex transcriptional repressor PdhR;


Pssm-ID: 181879 [Multi-domain]  Cd Length: 254  Bit Score: 114.73  E-value: 4.17e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925  12 MIKNGELKPGDKLDSVQALAESFQVSRSAVREALSALKAMGLVEMKQGEGTYLKEFELNQISQPLSAALLMKKEDVKQLL 91
Cdd:PRK09464   22 LILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQSSLWQSFSDPLVELLSDHPESQFDLL 101

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925  92 EVRKLLEIGVASLAAEKRTEADLERIQDALKEMGSIEADGELGEKAD--FAFHLALADASQNELLKHLMNHVSSLLLETM 169
Cdd:PRK09464  102 ETRHALEGIAAYYAALRGTDEDFERIRECHHAIELAQQSGDLDAEANavMQYQIAVTEAAHNVVLLHLLRCMEPMLEQNV 181

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|..
gi 2111010925 170 RETRKIwLFSKKTSVQRLYEEHERIYNAVAAGNGAQAEAAMLAHLTNVEDVL 221
Cdd:PRK09464  182 RQNFEL-LYRRREMLPKVSSHRARIFEAIVAGKPEKAREASHRHLAFIEEIL 232
PRK09990 PRK09990
DNA-binding transcriptional regulator GlcC; Provisional
 3-221 4.14e-28

DNA-binding transcriptional regulator GlcC; Provisional


Pssm-ID: 182186 [Multi-domain]  Cd Length: 251  Bit Score: 106.77  E-value: 4.14e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925   3 EEVADALLDMIKNGELKPGDKLDSVQALAESFQVSRSAVREALSALKAMGLVEMKQGEGTYLKEFELNQISQPLSAALLM 82
Cdd:PRK09990   10 DVVAERIERLIVDGVLKVGQALPSERRLCEKLGFSRSALREGLTVLRGRGIIETAQGRGSFVARLNRVQDASPLMHLFSS 89

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925  83 KKEDVKQLLEVRKLLEIGVASLAAEKRTEADLERIQDALKEMgsIEADGELGE-------KADFAFHLALADASQNELLK 155
Cdd:PRK09990   90 QPRTLYDLLEVRALLEGESARLAALRGTQADFVLITRRYEEM--LAAHENNKEidpiehaRLDHAFHLAICEASHNPVLV 167

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2111010925 156 HLMNHVSSLLLETmretrkiwLFSkktSVQRLY----------EEHERIYNAVAAGNGAQAEAAMLAHLTNVEDVL 221
Cdd:PRK09990  168 HTLQSLTDLMLSS--------VFA---SVNNLYhrpqqkkqidRQHARLYNAVLQRLPEQAQRAARDHIRTVRDNL 232
FCD smart00895
This entry represents the C-terminal ligand binding domain of many members of the GntR family; ...
 89-216 6.76e-25

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: 94.73  E-value: 6.76e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925   89 QLLEVRKLLEIGVASLAAEKRTEADLERIQDALKEMGSIEADGELGE---KADFAFHLALADASQNELLKHLMNHVSSLL 165
Cdd:smart00895   1 ELYEVRRALEPLAARLAAERATDEDLAALEALLDAMEAAAAAGDDLEefaELDREFHRALAEAAGNPVLLELLESLRARL 80

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|.
gi 2111010925  166 LETMRETRKIWlfskktsvQRLYEEHERIYNAVAAGNGAQAEAAMLAHLTN 216
Cdd:smart00895  81 RRLRRLSLEAA--------RRALDEHRAILDAIRARDAEAARAAMREHLEA 123
PRK10225 PRK10225
Uxu operon transcriptional regulator;
2-221 1.27e-23

Uxu operon transcriptional regulator;


Pssm-ID: 182318 [Multi-domain]  Cd Length: 257  Bit Score: 95.09  E-value: 1.27e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925   2 YEEVADALLDMIKNGELKPGDKLDSVQALAESFQVSRSAVREALSALKAMGLVEMKQGEGTYLKEFElNQISQPLSAALL 81
Cdd:PRK10225   11 YQEVGAMIRDLIIKTPYNPGERLPPEREIAEMLDVTRTVVREALIMLEIKGLVEVRRGAGIYVLDSS-GSHNTDSPDANV 89

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925  82 MKKEDVKQLLEVRKLLEIGVASLAAEKRTEADLERIQDAL----KEMGSIEADGElgEKADFAFHLALADASQNELLKHL 157
Cdd:PRK10225   90 CNDAGPFELLQARQLLESNIAEFAALQATREDIVKMRQALqleeRELASSAPGSS--ESGDMQFHLAIAEATHNSMLVEL 167

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2111010925 158 MNHVSSllletMRETRKIWLFSKKTSVQRLYE-----EHERIYNAVAAGNGAQAEAAMLAHLTNVEDVL 221
Cdd:PRK10225  168 FRQSWQ-----WRENNPMWIQLHSHLDDSLYRkewlgDHKQILAALIKKDARAAKLAMWQHLENVKQRL 231
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 2-65 8.62e-23

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: 87.50  E-value: 8.62e-23
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2111010925   2 YEEVADALLDMIKNGELKPGDKLDSVQALAESFQVSRSAVREALSALKAMGLVEMKQGEGTYLK 65
Cdd:cd07377     3 YEQIADQLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFVA 66
FCD pfam07729
FCD domain; This domain is the C-terminal ligand binding domain of many members of the GntR ...
 89-212 4.08e-21

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: 84.73  E-value: 4.08e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925  89 QLLEVRKLLEIGVASLAAEKRTEADLERIQDALKEMGSIEADGELGE--KADFAFHLALADASQNELLKHLMNHVSSLLL 166
Cdd:pfam07729   1 ELYELRAALEPLAARLAAERATDEDLAELEALLEALEAAADAGDLEAfaEADREFHLALAEAAGNPVLARMLESLWDRLR 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 2111010925 167 ETMRetrkiWLFSKKTSVQRLYEEHERIYNAVAAGNGAQAEAAMLA 212
Cdd:pfam07729  81 RLRR-----LLLSSPGRLRASLEEHRAILDAIRARDPEAARAAMRR 121
GntR pfam00392
Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the ...
 2-63 8.72e-19

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: 76.88  E-value: 8.72e-19
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2111010925   2 YEEVADALLDMIKNGELKPGDKLDSVQALAESFQVSRSAVREALSALKAMGLVEMKQGEGTY 63
Cdd:pfam00392   2 YEQVYARLREDILSGRLRPGDKLPSERELAAEFGVSRTTVREALRRLEAEGLVERRQGRGTF 63
MngR COG2188
DNA-binding transcriptional regulator, GntR family [Transcription];
2-77 6.09e-18

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


Pssm-ID: 441791 [Multi-domain]  Cd Length: 238  Bit Score: 79.52  E-value: 6.09e-18
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2111010925   2 YEEVADALLDMIKNGELKPGDKLDSVQALAESFQVSRSAVREALSALKAMGLVEMKQGEGTYLKEfelNQISQPLS 77
Cdd:COG2188     7 YLQIADALRERIESGELPPGDRLPSERELAEEFGVSRMTVRKALDELVEEGLLERRQGRGTFVAE---PKIEYPLS 79
HTH_GNTR smart00345
helix_turn_helix gluconate operon transcriptional repressor;
5-63 8.78e-18

helix_turn_helix gluconate operon transcriptional repressor;


Pssm-ID: 197669 [Multi-domain]  Cd Length: 60  Bit Score: 74.15  E-value: 8.78e-18
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 2111010925    5 VADALLDMIKNGELKPGDKLDSVQALAESFQVSRSAVREALSALKAMGLVEMKQGEGTY 63
Cdd:smart00345   1 VAERLREDIVSGELRPGDKLPSERELAAQLGVSRTTVREALSRLEAEGLVQRRPGSGTF 59
PRK11523 PRK11523
transcriptional regulator ExuR;
1-229 4.12e-14

transcriptional regulator ExuR;


Pssm-ID: 183176 [Multi-domain]  Cd Length: 253  Bit Score: 69.10  E-value: 4.12e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925   1 MYEEVADALLDMIKNGELKPGDKLDSVQALAESFQVSRSAVREALSALKAMGLVEMKQGEGTYLKEFELNQISQPlSAAL 80
Cdd:PRK11523    9 LYQQLAAELKERIEQGVYLVGDKLPAERFIADEKNVSRTVVREAIIMLEVEGYVEVRKGSGIHVVSNQPRHQQAA-DNNM 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925  81 LMKKEDVKQLLEVRKLLEIGVASLAAEKRTEADLERIQdALKEMGSIEaDGELGEKADFAFHLALADASQNELLKHLMNH 160
Cdd:PRK11523   88 EFANYGPFELLQARQLIESNIAEFAATQVTKQDIMKLM-AIQEQARGE-DCFRDSEWDLQFHVQVALATQNSALAAIVEK 165

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2111010925 161 vssllLETMRETRKIWL----FSKKTSVQRLYEEHERIYNAVAAGNGAQAEAAMLAHLTNVEDVL----SGYFEENV 229
Cdd:PRK11523  166 -----MWTQRSHNPYWKklheHIDDRTVDNWCDDHDQILKALIRKDPHAAKLAMWQHLENTKQMLfnetSDDFEFNA 237
PRK09764 PRK09764
GntR family transcriptional regulator;
1-70 7.65e-14

GntR family transcriptional regulator;


Pssm-ID: 182065 [Multi-domain]  Cd Length: 240  Bit Score: 68.32  E-value: 7.65e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925   1 MYEEVADALLDMIKNGELKPGDKLDSVQALAESFQVSRSAVREALSALKAMGLVEMKQGEGTYLKEFELN 70
Cdd:PRK09764    6 LYRQIADRIREQIARGELKPGDALPTESALQTEFGVSRVTVRQALRQLVEQQILESIQGSGTYVKEERVN 75
ARO8 COG1167
DNA-binding transcriptional regulator, MocR family, contains an aminotransferase domain ...
 2-63 9.21e-14

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: 69.47  E-value: 9.21e-14
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2111010925   2 YEEVADALLDMIKNGELKPGDKLDSVQALAESFQVSRSAVREALSALKAMGLVEMKQGEGTY 63
Cdd:COG1167    14 YLQLADALREAILSGRLPPGDRLPSSRELAAQLGVSRSTVVRAYEELEAEGLIESRPGSGTF 75
YhcF COG1725
DNA-binding transcriptional regulator YhcF, GntR family [Transcription];
2-101 2.05e-12

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


Pssm-ID: 441331 [Multi-domain]  Cd Length: 114  Bit Score: 61.73  E-value: 2.05e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925   2 YEEVADALLDMIKNGELKPGDKLDSVQALAESFQVSRSAVREALSALKAMGLVEMKQGEGTYLKEfelnqisQPLSAALL 81
Cdd:COG1725    12 YEQIADQIKEAIASGELKPGDRLPSVRELAAELGVNPNTVAKAYRELEDEGLIETRRGKGTFVAE-------DARELLEE 84

                          90       100
                  ....*....|....*....|..
gi 2111010925  82 MKKEDVKQLLE--VRKLLEIGV 101
Cdd:COG1725    85 RREEFLEEALRelVAEARRLGL 106
PRK11402 PRK11402
transcriptional regulator PhoB;
1-65 2.65e-07

transcriptional regulator PhoB;


Pssm-ID: 183118 [Multi-domain]  Cd Length: 241  Bit Score: 49.83  E-value: 2.65e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2111010925   1 MYEEVADALLDMIKNGELKPGDKLDSVQALAESFQVSRSAVREALSALKAMGLVEMKQGEGTYLK 65
Cdd:PRK11402   10 LYATVRQRLLDDIAQGVYQAGQQIPTENELCTQYNVSRITIRKAISDLVADGVLIRWQGKGTFVQ 74
PRK11534 PRK11534
DNA-binding transcriptional regulator CsiR; Provisional
 11-214 7.81e-05

DNA-binding transcriptional regulator CsiR; Provisional


Pssm-ID: 183181 [Multi-domain]  Cd Length: 224  Bit Score: 42.57  E-value: 7.81e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925  11 DMIKnGELKPGDKLdSVQALAESFQVSRSAVREALSALKAMGLVemkqgegtylkefelNQISQPLSAALLMKKEDVKQL 90
Cdd:PRK11534   19 DIIR-GNFQPDEKL-RMSLLTSRYALGVGPLREALSQLVAERLV---------------TVVNQKGYRVASMSEQELLDI 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925  91 LEVRKLLEIGVASLAAEK---RTEADLERIQDALKEMGSIEADGELGEKADF---AFHLALADASQNellKHLMnHVSSL 164
Cdd:PRK11534   82 FDARANMEAMLVSLAIARggdEWEADVLAKAHLLSKLEACDASEKMLDEWDLrhqAFHTAIVAGCGS---HYLL-QMRER 157

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2111010925 165 LLETMRETRKIWLFSKKTSVQRL---YEEHERIYNAVAAGNGAQAEAAMLAHL 214
Cdd:PRK11534  158 LFDLAARYRFIWLRRTVLSVEMLedkHDQHQTLTAAILARDTARASELMRQHL 210
PRK14999 PRK14999
histidine utilization repressor; Provisional
 2-78 9.88e-05

histidine utilization repressor; Provisional


Pssm-ID: 184961 [Multi-domain]  Cd Length: 241  Bit Score: 42.23  E-value: 9.88e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2111010925   2 YEEVADALLDMIKNGELKPGDKLDSVQALAESFQVSRSAVREALSALKAMGLVEMKQGEGTYLKE-------FELNQISQ 74
Cdd:PRK14999   14 YETVKQDICKKIAGGVWQPHDRIPSEAELVAQYGFSRMTINRALRELTDEGWLVRLQGVGTFVAEpkgqsalFEVRSIAE 93


                  ....
gi 2111010925  75 PLSA 78
Cdd:PRK14999   94 EIAA 97
PRK10079 PRK10079
phosphonate metabolism transcriptional regulator PhnF; Provisional
 2-62 1.72e-03

phosphonate metabolism transcriptional regulator PhnF; Provisional


Pssm-ID: 182227 [Multi-domain]  Cd Length: 241  Bit Score: 38.60  E-value: 1.72e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2111010925   2 YEEVAdALLDMIKNGELKPGDKLDSVQALAESFQVSRSAVREALSALKAMGLVEMKQGEGT 62
Cdd:PRK10079   14 YQEIA-AKLEQELRQHYRCGDYLPAEQQLAARYEVNRHTLRRAIDQLVEKGWVQRRQGVGV 73
PRK15481 PRK15481
transcriptional regulatory protein PtsJ; Provisional
 3-66 2.35e-03

transcriptional regulatory protein PtsJ; Provisional


Pssm-ID: 185378 [Multi-domain]  Cd Length: 431  Bit Score: 38.49  E-value: 2.35e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2111010925   3 EEVADALLDMIKNGELKPGDKLDSVQALAESFQVSRSAVREALSALKAMGLVEMKQGEGTYLKE 66
Cdd:PRK15481    8 NEIFDSIRQLIQAGRLRPGDSLPPVRELASELGVNRNTVAAAYKRLVTAGLAQSQGRNGTVIRG 71
BirA COG1654
Biotin operon repressor [Transcription];
1-66 6.62e-03

Biotin operon repressor [Transcription];


Pssm-ID: 441260 [Multi-domain]  Cd Length: 324  Bit Score: 36.89  E-value: 6.62e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2111010925   1 MYEEVADALLDMIKNGELKPGdkldsvQALAESFQVSRSAVREALSALKAMGL-VEMKQGEGTYLKE 66
Cdd:COG1654     1 MMSSTRLKLLRLLADGEFHSG------EELAEELGVSRAAVWKHIKALRELGYeIESVPGKGYRLAE 61
HTH_11 pfam08279
HTH domain; This family includes helix-turn-helix domains in a wide variety of proteins.
 26-61 7.93e-03

HTH domain; This family includes helix-turn-helix domains in a wide variety of proteins.


Pssm-ID: 429896 [Multi-domain]  Cd Length: 52  Bit Score: 33.56  E-value: 7.93e-03
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 2111010925  26 SVQALAESFQVSRSAVREALSALKAMGL-VEMKQGEG 61
Cdd:pfam08279  15 SGQELAEKLGVSRRTIRRDIKILEELGVpIEAEPGRG 51
 
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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