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Conserved domains on  [gi|1120753734|gb|APP04169|]
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GntR family transcriptional regulator [Vibrio harveyi]

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];
10-227 1.59e-59

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


:

Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 187.45  E-value: 1.59e-59
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734  10 SHRKIHVQVARQIARKILSGELNQNERLPNEMELCDAFGVSRTALRESTKLLSAKGLIESKPKVGTTVRARNNWHFLDPq 89
Cdd:COG2186     4 RRRSLAEQVAEQLRELILSGELKPGDRLPSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVREPSPWALLDP- 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734  90 lLEWIQDLEDTepFLAQFLGLRKAIEPEACALAASNATAEQRKELSVIFQRMTMAASryDYDDWTVNDHLFHQTIFLSTG 169
Cdd:COG2186    83 -LALLLALDDA--SLRDLLEARLALEPEAARLAAERATDEDLARLEAALAEMEAAAD--DGEAFAEADLAFHRAIAEASG 157

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1120753734 170 NQFYIPFGNILSTIFKLFIDHSAEGGRFC---IEEHREIYDAIMAGNGDQARLASHTLLND 227
Cdd:COG2186   158 NPLLALLLESLRELLRRSVRLTLRSPEARersLAEHRAILDAIRAGDPEAARAAMRAHLEA 218
 
Name Accession Description Interval E-value
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
10-227 1.59e-59

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


Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 187.45  E-value: 1.59e-59
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734  10 SHRKIHVQVARQIARKILSGELNQNERLPNEMELCDAFGVSRTALRESTKLLSAKGLIESKPKVGTTVRARNNWHFLDPq 89
Cdd:COG2186     4 RRRSLAEQVAEQLRELILSGELKPGDRLPSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVREPSPWALLDP- 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734  90 lLEWIQDLEDTepFLAQFLGLRKAIEPEACALAASNATAEQRKELSVIFQRMTMAASryDYDDWTVNDHLFHQTIFLSTG 169
Cdd:COG2186    83 -LALLLALDDA--SLRDLLEARLALEPEAARLAAERATDEDLARLEAALAEMEAAAD--DGEAFAEADLAFHRAIAEASG 157

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1120753734 170 NQFYIPFGNILSTIFKLFIDHSAEGGRFC---IEEHREIYDAIMAGNGDQARLASHTLLND 227
Cdd:COG2186   158 NPLLALLLESLRELLRRSVRLTLRSPEARersLAEHRAILDAIRAGDPEAARAAMRAHLEA 218
FCD smart00895
This entry represents the C-terminal ligand binding domain of many members of the GntR family; ...
 110-227 2.27e-22

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: 88.57  E-value: 2.27e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734  110 LRKAIEPEACALAASNATAEQRKELSVIFQRMTMAASRYD-YDDWTVNDHLFHQTIFLSTGNQFYIPFGNILSTIFKLFI 188
Cdd:smart00895   5 VRRALEPLAARLAAERATDEDLAALEALLDAMEAAAAAGDdLEEFAELDREFHRALAEAAGNPVLLELLESLRARLRRLR 84

                           90       100       110
                   ....*....|....*....|....*....|....*....
gi 1120753734  189 DHSAEGGRFCIEEHREIYDAIMAGNGDQARLASHTLLND 227
Cdd:smart00895  85 RLSLEAARRALDEHRAILDAIRARDAEAARAAMREHLEA 123
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 13-78 6.21e-22

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: 85.58  E-value: 6.21e-22
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1120753734  13 KIHVQVARQIARKILSGELNQNERLPNEMELCDAFGVSRTALRESTKLLSAKGLIESKPKVGTTVR 78
Cdd:cd07377     1 PLYEQIADQLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFVA 66
FCD pfam07729
FCD domain; This domain is the C-terminal ligand binding domain of many members of the GntR ...
 110-222 5.43e-18

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: 77.02  E-value: 5.43e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734 110 LRKAIEPEACALAASNATAEQRKELSVIFQRMTMAASRYDYDDWTVNDHLFHQTIFLSTGNQFYIPFGNILSTIFKLF-- 187
Cdd:pfam07729   5 LRAALEPLAARLAAERATDEDLAELEALLEALEAAADAGDLEAFAEADREFHLALAEAAGNPVLARMLESLWDRLRRLrr 84

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1120753734 188 -IDHSAEGGRFCIEEHREIYDAIMAGNGDQARLASH 222
Cdd:pfam07729  85 lLLSSPGRLRASLEEHRAILDAIRARDPEAARAAMR 120
PRK03837 PRK03837
transcriptional regulator NanR; Provisional
 12-226 6.68e-16

transcriptional regulator NanR; Provisional


Pssm-ID: 235166 [Multi-domain]  Cd Length: 241  Bit Score: 74.29  E-value: 6.68e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734  12 RKIHVQVARQIARKILSGELNQNERLPNEMELCDAFGVSRTALRESTKLLSAKGLIEskpkVGTTVRARnnwhFLDPQLL 91
Cdd:PRK03837   12 KKLSEEVEERLEQMIRSGEFGPGDQLPSERELMAFFGVGRPAVREALQALKRKGLVQ----ISHGERAR----VSRPSAD 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734  92 EWIQDLEDT--------EPFLAQFLGLRKAIEPEACALAASNATAEQRKELSVIFQRmtMAASRYDYDDWTVNDHLFHQT 163
Cdd:PRK03837   84 TIIGQLSGMakdflsqsPDGLAHLKQARLFFESSLARYAAEHATDEQIALLRKALER--NSQSLGDNAAFIRSDMEFHRV 161

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1120753734 164 IFLSTGNQFYIPfgnILSTIFKLFID------HSAEGGRFCIEEHREIYDAIMAGNGDQARLASHTLLN 226
Cdd:PRK03837  162 IAEIPGNPIFMA---IHEALLDWLIEarpevvILHGHENVTLQEHIAIVDAIRAHDPDEADRALQSHLN 227
C_P_lyase_phnF TIGR02325
phosphonates metabolism transcriptional regulator PhnF; All members of the seed alignment for ...
 11-80 4.85e-08

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


Pssm-ID: 131378 [Multi-domain]  Cd Length: 238  Bit Score: 52.09  E-value: 4.85e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1120753734  11 HRKIHVQVARQIA----RKILSGELNQNERLPNEMELCDAFGVSRTALRESTKLLSAKGLIESKPKVGTTVRAR 80
Cdd:TIGR02325   2 ERTSGVALWRQIAdkieQEIAAGHLRAGDYLPAEMQLAERFGVNRHTVRRAIAALVERGLLRAEQGRGTFVAAR 75
 
Name Accession Description Interval E-value
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
10-227 1.59e-59

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


Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 187.45  E-value: 1.59e-59
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734  10 SHRKIHVQVARQIARKILSGELNQNERLPNEMELCDAFGVSRTALRESTKLLSAKGLIESKPKVGTTVRARNNWHFLDPq 89
Cdd:COG2186     4 RRRSLAEQVAEQLRELILSGELKPGDRLPSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVREPSPWALLDP- 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734  90 lLEWIQDLEDTepFLAQFLGLRKAIEPEACALAASNATAEQRKELSVIFQRMTMAASryDYDDWTVNDHLFHQTIFLSTG 169
Cdd:COG2186    83 -LALLLALDDA--SLRDLLEARLALEPEAARLAAERATDEDLARLEAALAEMEAAAD--DGEAFAEADLAFHRAIAEASG 157

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1120753734 170 NQFYIPFGNILSTIFKLFIDHSAEGGRFC---IEEHREIYDAIMAGNGDQARLASHTLLND 227
Cdd:COG2186   158 NPLLALLLESLRELLRRSVRLTLRSPEARersLAEHRAILDAIRAGDPEAARAAMRAHLEA 218
GntR COG1802
DNA-binding transcriptional regulator, GntR family [Transcription];
8-220 5.10e-36

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


Pssm-ID: 441407 [Multi-domain]  Cd Length: 222  Bit Score: 126.96  E-value: 5.10e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734   8 EDSHRKIHVQVARQIARKILSGELNQNERLpNEMELCDAFGVSRTALRESTKLLSAKGLIESKPKVGTTVRArnnwhfLD 87
Cdd:COG1802     6 PLRRESLAEQVYEALREAILSGELPPGERL-SEAELAERLGVSRTPVREALRRLEAEGLVEIRPNRGARVAP------LS 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734  88 PQllewiqdledtepFLAQFLGLRKAIEPEACALAASNATAEQRKELSVIFQRMTMAASRYDYDDWTVNDHLFHQTIFLS 167
Cdd:COG1802    79 PE-------------EIRELYEVRAALEGLAARLAAERATPADLARLRALLEELEAAAAAGDVAAYLELDREFHRALVEA 145

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1120753734 168 TGNQFYIPFGNILSTIFKLFI---DHSAEGGRFCIEEHREIYDAIMAGNGDQARLA 220
Cdd:COG1802   146 AGNPRLAELLRRLRARLRRYRrlsLRSPGRLEESLAEHRAILDALEAGDAEAAAAA 201
FCD smart00895
This entry represents the C-terminal ligand binding domain of many members of the GntR family; ...
 110-227 2.27e-22

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: 88.57  E-value: 2.27e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734  110 LRKAIEPEACALAASNATAEQRKELSVIFQRMTMAASRYD-YDDWTVNDHLFHQTIFLSTGNQFYIPFGNILSTIFKLFI 188
Cdd:smart00895   5 VRRALEPLAARLAAERATDEDLAALEALLDAMEAAAAAGDdLEEFAELDREFHRALAEAAGNPVLLELLESLRARLRRLR 84

                           90       100       110
                   ....*....|....*....|....*....|....*....
gi 1120753734  189 DHSAEGGRFCIEEHREIYDAIMAGNGDQARLASHTLLND 227
Cdd:smart00895  85 RLSLEAARRALDEHRAILDAIRARDAEAARAAMREHLEA 123
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 13-78 6.21e-22

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: 85.58  E-value: 6.21e-22
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1120753734  13 KIHVQVARQIARKILSGELNQNERLPNEMELCDAFGVSRTALRESTKLLSAKGLIESKPKVGTTVR 78
Cdd:cd07377     1 PLYEQIADQLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFVA 66
MngR COG2188
DNA-binding transcriptional regulator, GntR family [Transcription];
9-99 1.80e-19

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


Pssm-ID: 441791 [Multi-domain]  Cd Length: 238  Bit Score: 83.76  E-value: 1.80e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734   9 DSHRKIHVQVARQIARKILSGELNQNERLPNEMELCDAFGVSRTALRESTKLLSAKGLIESKPKVGTTVRARNNWHFLDp 88
Cdd:COG2188     1 SSPVPLYLQIADALRERIESGELPPGDRLPSERELAEEFGVSRMTVRKALDELVEEGLLERRQGRGTFVAEPKIEYPLS- 79

                          90
                  ....*....|.
gi 1120753734  89 QLLEWIQDLED 99
Cdd:COG2188    80 RLTSFTEELRA 90
FCD pfam07729
FCD domain; This domain is the C-terminal ligand binding domain of many members of the GntR ...
 110-222 5.43e-18

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: 77.02  E-value: 5.43e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734 110 LRKAIEPEACALAASNATAEQRKELSVIFQRMTMAASRYDYDDWTVNDHLFHQTIFLSTGNQFYIPFGNILSTIFKLF-- 187
Cdd:pfam07729   5 LRAALEPLAARLAAERATDEDLAELEALLEALEAAADAGDLEAFAEADREFHLALAEAAGNPVLARMLESLWDRLRRLrr 84

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1120753734 188 -IDHSAEGGRFCIEEHREIYDAIMAGNGDQARLASH 222
Cdd:pfam07729  85 lLLSSPGRLRASLEEHRAILDAIRARDPEAARAAMR 120
GntR pfam00392
Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the ...
 17-77 5.19e-17

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: 72.65  E-value: 5.19e-17
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1120753734  17 QVARQIARKILSGELNQNERLPNEMELCDAFGVSRTALRESTKLLSAKGLIESKPKVGTTV 77
Cdd:pfam00392   4 QVYARLREDILSGRLRPGDKLPSERELAAEFGVSRTTVREALRRLEAEGLVERRQGRGTFV 64
PRK03837 PRK03837
transcriptional regulator NanR; Provisional
 12-226 6.68e-16

transcriptional regulator NanR; Provisional


Pssm-ID: 235166 [Multi-domain]  Cd Length: 241  Bit Score: 74.29  E-value: 6.68e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734  12 RKIHVQVARQIARKILSGELNQNERLPNEMELCDAFGVSRTALRESTKLLSAKGLIEskpkVGTTVRARnnwhFLDPQLL 91
Cdd:PRK03837   12 KKLSEEVEERLEQMIRSGEFGPGDQLPSERELMAFFGVGRPAVREALQALKRKGLVQ----ISHGERAR----VSRPSAD 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734  92 EWIQDLEDT--------EPFLAQFLGLRKAIEPEACALAASNATAEQRKELSVIFQRmtMAASRYDYDDWTVNDHLFHQT 163
Cdd:PRK03837   84 TIIGQLSGMakdflsqsPDGLAHLKQARLFFESSLARYAAEHATDEQIALLRKALER--NSQSLGDNAAFIRSDMEFHRV 161

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1120753734 164 IFLSTGNQFYIPfgnILSTIFKLFID------HSAEGGRFCIEEHREIYDAIMAGNGDQARLASHTLLN 226
Cdd:PRK03837  162 IAEIPGNPIFMA---IHEALLDWLIEarpevvILHGHENVTLQEHIAIVDAIRAHDPDEADRALQSHLN 227
HTH_GNTR smart00345
helix_turn_helix gluconate operon transcriptional repressor;
18-77 3.45e-15

helix_turn_helix gluconate operon transcriptional repressor;


Pssm-ID: 197669 [Multi-domain]  Cd Length: 60  Bit Score: 67.60  E-value: 3.45e-15
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734   18 VARQIARKILSGELNQNERLPNEMELCDAFGVSRTALRESTKLLSAKGLIESKPKVGTTV 77
Cdd:smart00345   1 VAERLREDIVSGELRPGDKLPSERELAAQLGVSRTTVREALSRLEAEGLVQRRPGSGTFV 60
PRK10421 PRK10421
DNA-binding transcriptional repressor LldR; Provisional
 17-220 5.47e-15

DNA-binding transcriptional repressor LldR; Provisional


Pssm-ID: 236690 [Multi-domain]  Cd Length: 253  Bit Score: 71.72  E-value: 5.47e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734  17 QVARQIARKILSGELNQNERLPNEMELCDAFGVSRTALRESTKLLSAKGLIESKPKVGTTVRAR-NNWHflDPQLLEWIQ 95
Cdd:PRK10421    6 EVADRVRALIEEKNLEAGMKLPAERQLAMQLGVSRNSLREALAKLVSEGVLLSRRGGGTFIRWRhETWS--EQNIVQPLK 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734  96 DLEDTEP-FLAQFLGLRKAIEPEACALAASNATAEQRKELSVIFQRMtmaaSRYDYDDWTVNDHLFHQTIFLSTGNQFYI 174
Cdd:PRK10421   84 TLMADDPdYSFDILEARHAIEASTAWHAAMRATPGDKEKIQLCFEAT----LSEDPDLASQADVRFHLAIAEASHNVVLL 159

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1120753734 175 P-----FGNILSTIF---KLFIDHSAEGGRFCiEEHREIYDAIMAGNGDQARLA 220
Cdd:PRK10421  160 QtmrgfFDVLQSSVKqsrQRMYLVPPVFSQLT-EQHQAVMDAILAGDAEGARKA 212
ARO8 COG1167
DNA-binding transcriptional regulator, MocR family, contains an aminotransferase domain ...
 4-80 5.53e-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: 70.63  E-value: 5.53e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734   4 FSLVEDSHRKIHVQVARQIARKILSGELNQNERLPNEMELCDAFGVSRT----ALREstklLSAKGLIESKPKVGTTVRA 79
Cdd:COG1167     3 IRLDRDSSGPLYLQLADALREAILSGRLPPGDRLPSSRELAAQLGVSRStvvrAYEE----LEAEGLIESRPGSGTFVAA 78


                  .
gi 1120753734  80 R 80
Cdd:COG1167    79 R 79
PRK09990 PRK09990
DNA-binding transcriptional regulator GlcC; Provisional
 8-221 6.18e-14

DNA-binding transcriptional regulator GlcC; Provisional


Pssm-ID: 182186 [Multi-domain]  Cd Length: 251  Bit Score: 69.02  E-value: 6.18e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734   8 EDSHRKIHVQVARQIARKILSGELNQNERLPNEMELCDAFGVSRTALRESTKLLSAKGLIESKPKVGTTVRARNNWHFLD 87
Cdd:PRK09990    2 KDERRPIADVVAERIERLIVDGVLKVGQALPSERRLCEKLGFSRSALREGLTVLRGRGIIETAQGRGSFVARLNRVQDAS 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734  88 PqllewIQDLEDTEP-FLAQFLGLRKAIEPEACALAASNATAEQRKELSVIFQRMTMAASRYDYDDWTVN---DHLFHQT 163
Cdd:PRK09990   82 P-----LMHLFSSQPrTLYDLLEVRALLEGESARLAALRGTQADFVLITRRYEEMLAAHENNKEIDPIEHarlDHAFHLA 156

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1120753734 164 IFLSTGNQFYIP---------FGNILSTIFKLFidHSAEGGRFCIEEHREIYDAIMAGNGDQARLAS 221
Cdd:PRK09990  157 ICEASHNPVLVHtlqsltdlmLSSVFASVNNLY--HRPQQKKQIDRQHARLYNAVLQRLPEQAQRAA 221
YhcF COG1725
DNA-binding transcriptional regulator YhcF, GntR family [Transcription];
4-82 4.76e-11

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


Pssm-ID: 441331 [Multi-domain]  Cd Length: 114  Bit Score: 58.27  E-value: 4.76e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734   4 FSLVEDSHRKIHVQVARQIARKILSGELNQNERLPNEMELCDAFGVSR-TALReSTKLLSAKGLIESKPKVGTTVRARNN 82
Cdd:COG1725     1 IRIDFDSGVPIYEQIADQIKEAIASGELKPGDRLPSVRELAAELGVNPnTVAK-AYRELEDEGLIETRRGKGTFVAEDAR 79
pdhR PRK09464
pyruvate dehydrogenase complex transcriptional repressor PdhR;
21-222 1.40e-10

pyruvate dehydrogenase complex transcriptional repressor PdhR;


Pssm-ID: 181879 [Multi-domain]  Cd Length: 254  Bit Score: 59.65  E-value: 1.40e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734  21 QIARKILSGELNQNERLPNEMELCDAFGVSRTALRESTKLLSAKGLIESKPKVGTTVRARNNWHFLDPqLLEWIQDleDT 100
Cdd:PRK09464   18 QLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQSSLWQSFSDP-LVELLSD--HP 94

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734 101 EpflAQF--LGLRKAIEPEACALAASNATAEQRKELSVIFQRMTMAASRYDYDDWTVNDHLFHQTIFLSTGN-------Q 171
Cdd:PRK09464   95 E---SQFdlLETRHALEGIAAYYAALRGTDEDFERIRECHHAIELAQQSGDLDAEANAVMQYQIAVTEAAHNvvllhllR 171

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1120753734 172 FYIPF--GNILSTiFKLFidHSAEGGRFCIEEHR-EIYDAIMAGNGDQARLASH 222
Cdd:PRK09464  172 CMEPMleQNVRQN-FELL--YRRREMLPKVSSHRaRIFEAIVAGKPEKAREASH 222
PRK10225 PRK10225
Uxu operon transcriptional regulator;
10-237 4.55e-08

Uxu operon transcriptional regulator;


Pssm-ID: 182318 [Multi-domain]  Cd Length: 257  Bit Score: 52.33  E-value: 4.55e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734  10 SHRKIHVQVARQIARKILSGELNQNERLPNEMELCDAFGVSRTALRESTKLLSAKGLIESKPKVGTTV-RARNNWHFLDP 88
Cdd:PRK10225    6 SAQRPYQEVGAMIRDLIIKTPYNPGERLPPEREIAEMLDVTRTVVREALIMLEIKGLVEVRRGAGIYVlDSSGSHNTDSP 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734  89 QllewIQDLEDTEPFlaQFLGLRKAIEPEACALAASNATAEQ--RKELSVIFQRMTMAASRYDYDDwtVNDHLFHQTIFL 166
Cdd:PRK10225   86 D----ANVCNDAGPF--ELLQARQLLESNIAEFAALQATREDivKMRQALQLEERELASSAPGSSE--SGDMQFHLAIAE 157

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734 167 STGNqfyipfgNILSTIFK----------LFID-HSAEGGRFCIEE----HREIYDAIMAGNGDQARLASHTLLNDENQK 231
Cdd:PRK10225  158 ATHN-------SMLVELFRqswqwrennpMWIQlHSHLDDSLYRKEwlgdHKQILAALIKKDARAAKLAMWQHLENVKQR 230


                  ....*.
gi 1120753734 232 LSQVVN 237
Cdd:PRK10225  231 LLEFSN 236
C_P_lyase_phnF TIGR02325
phosphonates metabolism transcriptional regulator PhnF; All members of the seed alignment for ...
 11-80 4.85e-08

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


Pssm-ID: 131378 [Multi-domain]  Cd Length: 238  Bit Score: 52.09  E-value: 4.85e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1120753734  11 HRKIHVQVARQIA----RKILSGELNQNERLPNEMELCDAFGVSRTALRESTKLLSAKGLIESKPKVGTTVRAR 80
Cdd:TIGR02325   2 ERTSGVALWRQIAdkieQEIAAGHLRAGDYLPAEMQLAERFGVNRHTVRRAIAALVERGLLRAEQGRGTFVAAR 75
PRK09764 PRK09764
GntR family transcriptional regulator;
10-78 9.03e-08

GntR family transcriptional regulator;


Pssm-ID: 182065 [Multi-domain]  Cd Length: 240  Bit Score: 51.37  E-value: 9.03e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1120753734  10 SHRKIHVQVARQIARKILSGELNQNERLPNEMELCDAFGVSRTALRESTKLLSAKGLIESKPKVGTTVR 78
Cdd:PRK09764    2 GHKPLYRQIADRIREQIARGELKPGDALPTESALQTEFGVSRVTVRQALRQLVEQQILESIQGSGTYVK 70
PRK11523 PRK11523
transcriptional regulator ExuR;
12-170 2.62e-07

transcriptional regulator ExuR;


Pssm-ID: 183176 [Multi-domain]  Cd Length: 253  Bit Score: 49.84  E-value: 2.62e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734  12 RKIHVQVARQIARKILSGELNQNERLPNEMELCDAFGVSRTALRESTKLLSAKGLIESKPKVGTTVRARNNWHFLDPQll 91
Cdd:PRK11523    7 RRLYQQLAAELKERIEQGVYLVGDKLPAERFIADEKNVSRTVVREAIIMLEVEGYVEVRKGSGIHVVSNQPRHQQAAD-- 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734  92 ewiQDLE--DTEPFlaQFLGLRKAIEPEACALAASNATAEQRKELSVIfQRMTMAASRYDYDDWtvnDHLFHQTIFLSTG 169
Cdd:PRK11523   85 ---NNMEfaNYGPF--ELLQARQLIESNIAEFAATQVTKQDIMKLMAI-QEQARGEDCFRDSEW---DLQFHVQVALATQ 155


                  .
gi 1120753734 170 N 170
Cdd:PRK11523  156 N 156
PRK11402 PRK11402
transcriptional regulator PhoB;
10-79 1.73e-05

transcriptional regulator PhoB;


Pssm-ID: 183118 [Multi-domain]  Cd Length: 241  Bit Score: 44.44  E-value: 1.73e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1120753734  10 SHRKIHVQVARQIARKILSGELNQNERLPNEMELCDAFGVSRTALRESTKLLSAKGLIESKPKVGTTVRA 79
Cdd:PRK11402    6 SHQLLYATVRQRLLDDIAQGVYQAGQQIPTENELCTQYNVSRITIRKAISDLVADGVLIRWQGKGTFVQS 75
PRK14999 PRK14999
histidine utilization repressor; Provisional
 17-77 2.66e-04

histidine utilization repressor; Provisional


Pssm-ID: 184961 [Multi-domain]  Cd Length: 241  Bit Score: 41.07  E-value: 2.66e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1120753734  17 QVARQIARKILSGELNQNERLPNEMELCDAFGVSRTALRESTKLLSAKGLIESKPKVGTTV 77
Cdd:PRK14999   16 TVKQDICKKIAGGVWQPHDRIPSEAELVAQYGFSRMTINRALRELTDEGWLVRLQGVGTFV 76
HTH_ASNC smart00344
helix_turn_helix ASNC type; AsnC: an autogenously regulated activator of asparagine synthetase ...
 24-68 6.04e-03

helix_turn_helix ASNC type; AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli)


Pssm-ID: 214628 [Multi-domain]  Cd Length: 108  Bit Score: 35.57  E-value: 6.04e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*
gi 1120753734   24 RKILSgELNQNERLPNEmELCDAFGVSRTALRESTKLLSAKGLIE 68
Cdd:smart00344   6 RKILE-ELQKDARISLA-ELAKKVGLSPSTVHNRVKRLEEEGVIK 48
 
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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