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Conserved domains on  [gi|504513057|ref|WP_014700159|]
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GntR family transcriptional regulator [Pectobacterium parmentieri]

Protein Classification

GntR family transcriptional regulator( domain architecture ID 11448455)

GntR-family transcriptional regulator is one of a group of transcriptional regulators with a conserved N-terminal helix-turn-helix DNA-binding domain and a diverse C-terminal effector-binding and oligomerization domain; controls the expression of genes with diverse biological functions

CATH:  1.10.10.10
Gene Ontology:  GO:0003700|GO:0003677
PubMed:  33509775
SCOP:  4000155

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
GntR COG1802
DNA-binding transcriptional regulator, GntR family [Transcription];
13-218 2.37e-48

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


:

Pssm-ID: 441407 [Multi-domain]  Cd Length: 222  Bit Score: 158.16  E-value: 2.37e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504513057  13 LGSSVYTMLREALITGQFKPDDRLRIRELAAQVGTSVTPVRDAILQLAKEQALVLKTPRDIRVPQLTEDQFKEIRTLRLA 92
Cdd:COG1802   12 LAEQVYEALREAILSGELPPGERLSEAELAERLGVSRTPVREALRRLEAEGLVEIRPNRGARVAPLSPEEIRELYEVRAA 91

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504513057  93 LEGTGAELAAAYITPKMLKQIDENIHQNRLAIDEKNLREALRLNSEFHLFLAQAARMPLLTQFIGSLWMRTGPLIAQAYA 172
Cdd:COG1802   92 LEGLAARLAAERATPADLARLRALLEELEAAAAAGDVAAYLELDREFHRALVEAAGNPRLAELLRRLRARLRRYRRLSLR 171

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*..
gi 504513057 173 H-FSVQMAIEHHEDVLTALQQRDASAARQAIQSDILDGSETMLAFIA 218
Cdd:COG1802  172 SpGRLEESLAEHRAILDALEAGDAEAAAAALRAHLERARERLLEALA 218
 
Name Accession Description Interval E-value
GntR COG1802
DNA-binding transcriptional regulator, GntR family [Transcription];
13-218 2.37e-48

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


Pssm-ID: 441407 [Multi-domain]  Cd Length: 222  Bit Score: 158.16  E-value: 2.37e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504513057  13 LGSSVYTMLREALITGQFKPDDRLRIRELAAQVGTSVTPVRDAILQLAKEQALVLKTPRDIRVPQLTEDQFKEIRTLRLA 92
Cdd:COG1802   12 LAEQVYEALREAILSGELPPGERLSEAELAERLGVSRTPVREALRRLEAEGLVEIRPNRGARVAPLSPEEIRELYEVRAA 91

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504513057  93 LEGTGAELAAAYITPKMLKQIDENIHQNRLAIDEKNLREALRLNSEFHLFLAQAARMPLLTQFIGSLWMRTGPLIAQAYA 172
Cdd:COG1802   92 LEGLAARLAAERATPADLARLRALLEELEAAAAAGDVAAYLELDREFHRALVEAAGNPRLAELLRRLRARLRRYRRLSLR 171

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*..
gi 504513057 173 H-FSVQMAIEHHEDVLTALQQRDASAARQAIQSDILDGSETMLAFIA 218
Cdd:COG1802  172 SpGRLEESLAEHRAILDALEAGDAEAAAAALRAHLERARERLLEALA 218
PRK11414 PRK11414
GntR family transcriptional regulator;
6-203 7.39e-27

GntR family transcriptional regulator;


Pssm-ID: 183126 [Multi-domain]  Cd Length: 221  Bit Score: 102.64  E-value: 7.39e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504513057   6 GQINHSYLGSSVYTMLREALITGQFKPDDRLRIRELAAQVGTSVTPVRDAILQLAKEQALVLKTPRDIRVPQLTEDQFKE 85
Cdd:PRK11414   5 EKTQHISLTLQVENDLKHQLSIGALKPGARLITKNLAEQLGMSITPVREALLRLVSVNALSVAPAQAFTVPEVSKRQLDE 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504513057  86 IRTLRLALEGTGAELAAAYITPKMLKQIDENIHQNRLAIDEKNLREALRLNSEFHLFLAQAARMPLLTQFIGSLWMRTGP 165
Cdd:PRK11414  85 INRIRYELELMAVALAVENLTPQDLAELQELLEKLQQAQEKGDMEQIINANRLFRLAIYHRSNMPILCEMIEQLWVRMGP 164

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|.
gi 504513057 166 LIAQAYAHF---SVQMAIEHHEDVLTALQQRDASAARQAIQ 203
Cdd:PRK11414 165 SLHYLYEAInpaELREHIENYRLLLAALKAKDKEGCRHCLA 205
FCD pfam07729
FCD domain; This domain is the C-terminal ligand binding domain of many members of the GntR ...
 85-204 1.43e-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: 75.48  E-value: 1.43e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504513057   85 EIRTLRLALEGTGAELAAAYITPKMLKQIDENIHQNRLAIDEKNLREALRLNSEFHLFLAQAARMPLLTQFIGSLWMRTG 164
Cdd:pfam07729   1 ELYELRAALEPLAARLAAERATDEDLAELEALLEALEAAADAGDLEAFAEADREFHLALAEAAGNPVLARMLESLWDRLR 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 504513057  165 PLIAQAYAHFS-VQMAIEHHEDVLTALQQRDASAARQAIQS 204
Cdd:pfam07729  81 RLRRLLLSSPGrLRASLEEHRAILDAIRARDPEAARAAMRR 121
FCD smart00895
This entry represents the C-terminal ligand binding domain of many members of the GntR family; ...
 85-206 3.98e-17

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: 74.32  E-value: 3.98e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504513057    85 EIRTLRLALEGTGAELAAAYITPKMLKQIDENIHQNRLAIDEKNLREAL-RLNSEFHLFLAQAARMPLLTQFIGSLWMRT 163
Cdd:smart00895   1 ELYEVRRALEPLAARLAAERATDEDLAALEALLDAMEAAAAAGDDLEEFaELDREFHRALAEAAGNPVLLELLESLRARL 80

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|...
gi 504513057   164 GPLIAQAYAHFSvqMAIEHHEDVLTALQQRDASAARQAIQSDI 206
Cdd:smart00895  81 RRLRRLSLEAAR--RALDEHRAILDAIRARDAEAARAAMREHL 121
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 17-62 7.76e-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: 50.52  E-value: 7.76e-09
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 504513057  17 VYTMLREALITGQFKPDDRLR-IRELAAQVGTSVTPVRDAILQLAKE 62
Cdd:cd07377    6 IADQLREAILSGELKPGDRLPsERELAEELGVSRTTVREALRELEAE 52
 
Name Accession Description Interval E-value
GntR COG1802
DNA-binding transcriptional regulator, GntR family [Transcription];
13-218 2.37e-48

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


Pssm-ID: 441407 [Multi-domain]  Cd Length: 222  Bit Score: 158.16  E-value: 2.37e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504513057  13 LGSSVYTMLREALITGQFKPDDRLRIRELAAQVGTSVTPVRDAILQLAKEQALVLKTPRDIRVPQLTEDQFKEIRTLRLA 92
Cdd:COG1802   12 LAEQVYEALREAILSGELPPGERLSEAELAERLGVSRTPVREALRRLEAEGLVEIRPNRGARVAPLSPEEIRELYEVRAA 91

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504513057  93 LEGTGAELAAAYITPKMLKQIDENIHQNRLAIDEKNLREALRLNSEFHLFLAQAARMPLLTQFIGSLWMRTGPLIAQAYA 172
Cdd:COG1802   92 LEGLAARLAAERATPADLARLRALLEELEAAAAAGDVAAYLELDREFHRALVEAAGNPRLAELLRRLRARLRRYRRLSLR 171

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*..
gi 504513057 173 H-FSVQMAIEHHEDVLTALQQRDASAARQAIQSDILDGSETMLAFIA 218
Cdd:COG1802  172 SpGRLEESLAEHRAILDALEAGDAEAAAAALRAHLERARERLLEALA 218
PRK11414 PRK11414
GntR family transcriptional regulator;
6-203 7.39e-27

GntR family transcriptional regulator;


Pssm-ID: 183126 [Multi-domain]  Cd Length: 221  Bit Score: 102.64  E-value: 7.39e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504513057   6 GQINHSYLGSSVYTMLREALITGQFKPDDRLRIRELAAQVGTSVTPVRDAILQLAKEQALVLKTPRDIRVPQLTEDQFKE 85
Cdd:PRK11414   5 EKTQHISLTLQVENDLKHQLSIGALKPGARLITKNLAEQLGMSITPVREALLRLVSVNALSVAPAQAFTVPEVSKRQLDE 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504513057  86 IRTLRLALEGTGAELAAAYITPKMLKQIDENIHQNRLAIDEKNLREALRLNSEFHLFLAQAARMPLLTQFIGSLWMRTGP 165
Cdd:PRK11414  85 INRIRYELELMAVALAVENLTPQDLAELQELLEKLQQAQEKGDMEQIINANRLFRLAIYHRSNMPILCEMIEQLWVRMGP 164

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|.
gi 504513057 166 LIAQAYAHF---SVQMAIEHHEDVLTALQQRDASAARQAIQ 203
Cdd:PRK11414 165 SLHYLYEAInpaELREHIENYRLLLAALKAKDKEGCRHCLA 205
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
17-215 2.70e-21

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


Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 88.07  E-value: 2.70e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504513057  17 VYTMLREALITGQFKPDDRLRI-RELAAQVGTSVTPVRDAILQLAKEQALVLKTPRDIRV---------------PQLTE 80
Cdd:COG2186   12 VAEQLRELILSGELKPGDRLPSeRELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVrepspwalldplallLALDD 91

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504513057  81 DQFKEIRTLRLALEGTGAELAAAYITPKMLKQIDENIHQNRLAIDekNLREALRLNSEFHLFLAQAARMPLLTQFIGSLW 160
Cdd:COG2186   92 ASLRDLLEARLALEPEAARLAAERATDEDLARLEAALAEMEAAAD--DGEAFAEADLAFHRAIAEASGNPLLALLLESLR 169

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 504513057 161 MRTGPLIAQAYAHFSV-QMAIEHHEDVLTALQQRDASAARQAIQsDILDGSETMLA 215
Cdd:COG2186  170 ELLRRSVRLTLRSPEArERSLAEHRAILDAIRAGDPEAARAAMR-AHLEAVRERLR 224
FCD pfam07729
FCD domain; This domain is the C-terminal ligand binding domain of many members of the GntR ...
 85-204 1.43e-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: 75.48  E-value: 1.43e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504513057   85 EIRTLRLALEGTGAELAAAYITPKMLKQIDENIHQNRLAIDEKNLREALRLNSEFHLFLAQAARMPLLTQFIGSLWMRTG 164
Cdd:pfam07729   1 ELYELRAALEPLAARLAAERATDEDLAELEALLEALEAAADAGDLEAFAEADREFHLALAEAAGNPVLARMLESLWDRLR 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 504513057  165 PLIAQAYAHFS-VQMAIEHHEDVLTALQQRDASAARQAIQS 204
Cdd:pfam07729  81 RLRRLLLSSPGrLRASLEEHRAILDAIRARDPEAARAAMRR 121
FCD smart00895
This entry represents the C-terminal ligand binding domain of many members of the GntR family; ...
 85-206 3.98e-17

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: 74.32  E-value: 3.98e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504513057    85 EIRTLRLALEGTGAELAAAYITPKMLKQIDENIHQNRLAIDEKNLREAL-RLNSEFHLFLAQAARMPLLTQFIGSLWMRT 163
Cdd:smart00895   1 ELYEVRRALEPLAARLAAERATDEDLAALEALLDAMEAAAAAGDDLEEFaELDREFHRALAEAAGNPVLLELLESLRARL 80

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|...
gi 504513057   164 GPLIAQAYAHFSvqMAIEHHEDVLTALQQRDASAARQAIQSDI 206
Cdd:smart00895  81 RRLRRLSLEAAR--RALDEHRAILDAIRARDAEAARAAMREHL 121
PRK03837 PRK03837
transcriptional regulator NanR; Provisional
 1-204 5.02e-09

transcriptional regulator NanR; Provisional


Pssm-ID: 235166 [Multi-domain]  Cd Length: 241  Bit Score: 54.64  E-value: 5.02e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504513057   1 MNYPIGQINHSYLGSSVYTMLREALITGQFKPDDRL-RIRELAAQVGTSVTPVRDAILQLAK---------EQALVLKTP 70
Cdd:PRK03837   2 RNLRSRPIARKKLSEEVEERLEQMIRSGEFGPGDQLpSERELMAFFGVGRPAVREALQALKRkglvqishgERARVSRPS 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504513057  71 RDIRVPQL----------TEDQFKEIRTLRLALEGTGAELAAAYITPKMLKQIDENIHQNRLAIDekNLREALRLNSEFH 140
Cdd:PRK03837  82 ADTIIGQLsgmakdflsqSPDGLAHLKQARLFFESSLARYAAEHATDEQIALLRKALERNSQSLG--DNAAFIRSDMEFH 159

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 504513057 141 LFLAQAARMPLLTQFIGSL--WM---RTGPLIAQAYAHFSVQmaieHHEDVLTALQQRDASAARQAIQS 204
Cdd:PRK03837 160 RVIAEIPGNPIFMAIHEALldWLieaRPEVVILHGHENVTLQ----EHIAIVDAIRAHDPDEADRALQS 224
GntR pfam00392
Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the ...
 13-75 7.14e-09

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: 50.69  E-value: 7.14e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 504513057   13 LGSSVYTMLREALITGQFKPDDRL-RIRELAAQVGTSVTPVRDAILQLAKEQALVLKTPRDIRV 75
Cdd:pfam00392   1 LYEQVYARLREDILSGRLRPGDKLpSERELAAEFGVSRTTVREALRRLEAEGLVERRQGRGTFV 64
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 17-62 7.76e-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: 50.52  E-value: 7.76e-09
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 504513057  17 VYTMLREALITGQFKPDDRLR-IRELAAQVGTSVTPVRDAILQLAKE 62
Cdd:cd07377    6 IADQLREAILSGELKPGDRLPsERELAEELGVSRTTVREALRELEAE 52
HTH_GNTR smart00345
helix_turn_helix gluconate operon transcriptional repressor;
17-75 1.95e-08

helix_turn_helix gluconate operon transcriptional repressor;


Pssm-ID: 197669 [Multi-domain]  Cd Length: 60  Bit Score: 49.50  E-value: 1.95e-08
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 504513057    17 VYTMLREALITGQFKPDDRLR-IRELAAQVGTSVTPVRDAILQLAKEQALVLKTPRDIRV 75
Cdd:smart00345   1 VAERLREDIVSGELRPGDKLPsERELAAQLGVSRTTVREALSRLEAEGLVQRRPGSGTFV 60
PRK10225 PRK10225
Uxu operon transcriptional regulator;
17-220 5.88e-08

Uxu operon transcriptional regulator;


Pssm-ID: 182318 [Multi-domain]  Cd Length: 257  Bit Score: 51.94  E-value: 5.88e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504513057  17 VYTMLREALITGQFKPDDRLRI-RELAAQVGTSVTPVRDAILQLAKEQAL---------VLKTPRDIRVPQLTEDQFK-- 84
Cdd:PRK10225  14 VGAMIRDLIIKTPYNPGERLPPeREIAEMLDVTRTVVREALIMLEIKGLVevrrgagiyVLDSSGSHNTDSPDANVCNda 93

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504513057  85 ---EIRTLRLALEGTGAELAAayitpkmLKQIDENIHQNR--LAIDEKNLREALRLNSE-----FHLFLAQAARMPLLTQ 154
Cdd:PRK10225  94 gpfELLQARQLLESNIAEFAA-------LQATREDIVKMRqaLQLEERELASSAPGSSEsgdmqFHLAIAEATHNSMLVE 166

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 504513057 155 FIGSLWM--RTGPLIAQAYAHFSVQMA----IEHHEDVLTALQQRDASAARQAIQSDILDGSETMLAFIAVD 220
Cdd:PRK10225 167 LFRQSWQwrENNPMWIQLHSHLDDSLYrkewLGDHKQILAALIKKDARAAKLAMWQHLENVKQRLLEFSNVD 238
PRK10421 PRK10421
DNA-binding transcriptional repressor LldR; Provisional
 21-202 9.46e-08

DNA-binding transcriptional repressor LldR; Provisional


Pssm-ID: 236690 [Multi-domain]  Cd Length: 253  Bit Score: 51.31  E-value: 9.46e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504513057  21 LREALITGQFKPDDRLRI-RELAAQVGTSVTPVRDAILQLAKEQALVLKTPRDIRVPQLTEDQFKE-----IRTL----- 89
Cdd:PRK10421  11 VRALIEEKNLEAGMKLPAeRQLAMQLGVSRNSLREALAKLVSEGVLLSRRGGGTFIRWRHETWSEQnivqpLKTLmaddp 90

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504513057  90 ---------RLALEGTGAELAAAYITPKMlkqiDENIHQNRLAIDEKNLREALRLNSEFHLFLAQAARMPLLTQFIGSLW 160
Cdd:PRK10421  91 dysfdileaRHAIEASTAWHAAMRATPGD----KEKIQLCFEATLSEDPDLASQADVRFHLAIAEASHNVVLLQTMRGFF 166

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 504513057 161 -------------MRTGPLIaqaYAHFSVQmaiehHEDVLTALQQRDASAARQAI 202
Cdd:PRK10421 167 dvlqssvkqsrqrMYLVPPV---FSQLTEQ-----HQAVMDAILAGDAEGARKAM 213
PRK11534 PRK11534
DNA-binding transcriptional regulator CsiR; Provisional
 18-207 3.49e-07

DNA-binding transcriptional regulator CsiR; Provisional


Pssm-ID: 183181 [Multi-domain]  Cd Length: 224  Bit Score: 49.12  E-value: 3.49e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504513057  18 YTMLREALITGQFKPDDRLRIRELAAQVGTSVTPVRDAILQLAKEQALVLKTPRDIRVPQLTEDQFKEIRTLRLALEGTG 97
Cdd:PRK11534  13 YRWLKNDIIRGNFQPDEKLRMSLLTSRYALGVGPLREALSQLVAERLVTVVNQKGYRVASMSEQELLDIFDARANMEAML 92

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504513057  98 AELA--------AAYITPK--MLKQIdENIHQNRLAIDEKNLRealrlNSEFHLFLAQAARMPLLTQfigslwMRTGPL- 166
Cdd:PRK11534  93 VSLAiarggdewEADVLAKahLLSKL-EACDASEKMLDEWDLR-----HQAFHTAIVAGCGSHYLLQ------MRERLFd 160

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|..
gi 504513057 167 IAQAYAH-------FSVQMA----IEHHEdVLTALQQRDASAARQAIQSDIL 207
Cdd:PRK11534 161 LAARYRFiwlrrtvLSVEMLedkhDQHQT-LTAAILARDTARASELMRQHLL 211
MngR COG2188
DNA-binding transcriptional regulator, GntR family [Transcription];
17-66 7.10e-04

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


Pssm-ID: 441791 [Multi-domain]  Cd Length: 238  Bit Score: 39.46  E-value: 7.10e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 504513057  17 VYTMLREALITGQFKPDDRL-RIRELAAQVGTSVTPVRDAILQLAKEQALV 66
Cdd:COG2188   10 IADALRERIESGELPPGDRLpSERELAEEFGVSRMTVRKALDELVEEGLLE 60
 
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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