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Conserved domains on  [gi|754629382|ref|WP_042016482|]
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MULTISPECIES: UTRA domain-containing protein [Aeromonas]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
phnR super family cl31335
phosphonate utilization transcriptional regulator PhnR; This family of proteins are members of ...
 28-253 3.78e-72

phosphonate utilization transcriptional regulator PhnR; This family of proteins are members of the GntR family (pfam00392) containing an N-terminal helix-turn-helix (HTH) motif. This clade is found adjacent to or inside of operons for the degradation of 2-aminoethylphosphonate (AEP) in Salmonella, Vibrio Aeromonas hydrophila, Hahella chejuensis and Psychromonas ingrahamii. [Regulatory functions, DNA interactions]


The actual alignment was detected with superfamily member TIGR03337:

Pssm-ID: 132380 [Multi-domain]  Cd Length: 231  Bit Score: 220.85  E-value: 3.78e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754629382   28 QICRTLRRYIGSGHLAAGQQLPAERALSERFATTRITIKEALSSLEADGLIYRAERRGWFVAPPRLTYDPAIHTHFHQWI 107
Cdd:TIGR03337   5 YIKDHLSYQIRAGALLPGDKLPSERDLGERFNTTRVTIREALQQLEAEGLIYREDRRGWFVSPPRLRYNPTRTQNFHEYV 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754629382  108 GEQQRTAETRVLAHGNQLASSELCRWMGLEPFTPLYEIRRQRLIDGRPVLHVSHHLLASRFPGIASAPLASSLTELYRQR 187
Cdd:TIGR03337  85 REQGREPKTELIGVTVTPAPARMAELLQLQPFDRLFLLQRLRYADGRPVCYCENYILPARVPGLLKEDLNGSLTEIYRNH 164

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 754629382  188 YGIGQGWASLEITPSAARGEIARALNLAQGSAVLRLVRVNHDEEGKLVDCDIEHWRPDAIRICLDT 253
Cdd:TIGR03337 165 YGLVYHSMNLRFKPTALLEEAAQALGATAGLPALHLERTNYDQHGRVLDLDIEYWRHDALTIEVDT 230
 
Name Accession Description Interval E-value
phnR TIGR03337
phosphonate utilization transcriptional regulator PhnR; This family of proteins are members of ...
 28-253 3.78e-72

phosphonate utilization transcriptional regulator PhnR; This family of proteins are members of the GntR family (pfam00392) containing an N-terminal helix-turn-helix (HTH) motif. This clade is found adjacent to or inside of operons for the degradation of 2-aminoethylphosphonate (AEP) in Salmonella, Vibrio Aeromonas hydrophila, Hahella chejuensis and Psychromonas ingrahamii. [Regulatory functions, DNA interactions]


Pssm-ID: 132380 [Multi-domain]  Cd Length: 231  Bit Score: 220.85  E-value: 3.78e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754629382   28 QICRTLRRYIGSGHLAAGQQLPAERALSERFATTRITIKEALSSLEADGLIYRAERRGWFVAPPRLTYDPAIHTHFHQWI 107
Cdd:TIGR03337   5 YIKDHLSYQIRAGALLPGDKLPSERDLGERFNTTRVTIREALQQLEAEGLIYREDRRGWFVSPPRLRYNPTRTQNFHEYV 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754629382  108 GEQQRTAETRVLAHGNQLASSELCRWMGLEPFTPLYEIRRQRLIDGRPVLHVSHHLLASRFPGIASAPLASSLTELYRQR 187
Cdd:TIGR03337  85 REQGREPKTELIGVTVTPAPARMAELLQLQPFDRLFLLQRLRYADGRPVCYCENYILPARVPGLLKEDLNGSLTEIYRNH 164

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 754629382  188 YGIGQGWASLEITPSAARGEIARALNLAQGSAVLRLVRVNHDEEGKLVDCDIEHWRPDAIRICLDT 253
Cdd:TIGR03337 165 YGLVYHSMNLRFKPTALLEEAAQALGATAGLPALHLERTNYDQHGRVLDLDIEYWRHDALTIEVDT 230
MngR COG2188
DNA-binding transcriptional regulator, GntR family [Transcription];
19-255 4.20e-65

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


Pssm-ID: 441791 [Multi-domain]  Cd Length: 238  Bit Score: 203.17  E-value: 4.20e-65
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754629382  19 DGRIPsKCEQICRTLRRYIGSGHLAAGQQLPAERALSERFATTRITIKEALSSLEADGLIYRAERRGWFVAPPRLTYDPA 98
Cdd:COG2188    1 SSPVP-LYLQIADALRERIESGELPPGDRLPSERELAEEFGVSRMTVRKALDELVEEGLLERRQGRGTFVAEPKIEYPLS 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754629382  99 IHTHFHQWIGEQQRTAETRVLAHGNQLASSELCRWMGLEPFTPLYEIRRQRLIDGRPVLHVSHHLLASRFPGIASAPLAS 178
Cdd:COG2188   80 RLTSFTEELRARGREPSTRVLSAERVPADEEVAEALGLPPGAPVLRIERLRLADGEPVALETSYLPAALFPGLLEEDLET 159

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 754629382 179 -SLTELYRQRYGIGQGWASLEITPSAARGEIARALNLAQGSAVLRLVRVNHDEEGKLVDCDIEHWRPDAIRICLDTRA 255
Cdd:COG2188  160 gSLYELLEERYGLRITRAEQRIEAVLADAEEAELLGVPPGAPVLVIERVTYDADGRPVEYSRSYYRGDRYRFVVELRR 237
UTRA pfam07702
UTRA domain; The UbiC transcription regulator-associated (UTRA) domain is a conserved ...
 109-248 6.54e-31

UTRA domain; The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain that has a similar fold to pfam04345. It is believed to modulate activity of bacterial transcription factors in response to binding small molecules sugar phosphates and urocanate, Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 429607 [Multi-domain]  Cd Length: 141  Bit Score: 111.92  E-value: 6.54e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754629382  109 EQQRTAETRVLAHGNQLASSELCRWMGLEPFTPLYEIRRQRLIDGRPVLHVSHHLLASRFPGIASAPLAS-SLTELYRQR 187
Cdd:pfam07702   1 AQGREPKTEVLSLEEVPASAEIAEALGLPPGEPVYRIERLRYADGEPVALEEDYLPAELVPDLLEEDLEEgSLYDYLEER 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 754629382  188 YGIGQGWASLEITPSAARGEIARALNLAQGSAVLRLVRVNHDEEGKLVDCDIEHWRPDAIR 248
Cdd:pfam07702  81 YGLPITRAEQTIEAVLADAEEAELLGISPGAPVLLIERVTYDQDGRPVEYSRSYYRGDRYR 141
UTRA smart00866
The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; ...
 109-248 7.62e-30

The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; It has a similar fold to HutC/FarR-like bacterial transcription factors of the GntR family. It is believed to modulate activity of bacterial transcription factors in response to binding small molecules.


Pssm-ID: 214869 [Multi-domain]  Cd Length: 143  Bit Score: 109.31  E-value: 7.62e-30
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754629382   109 EQQRTAETRVLAHGNQLASSELCRWMGLEPFTPLYEIRRQRLIDGRPVLHVSHHLLASRFPGIASAPLASSLTELYRQRY 188
Cdd:smart00866   1 AQGRKPTTKVLSFERVPADEELAEALGLPPGDPVYRIERLRLADGEPVALETTYLPAALFPGLLEEDLSGSLYEYLEERL 80

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 754629382   189 GIG---QGWASLEITPSAARGEIARALNLAQGSAVLRLVRVNHDEEGKLVDCDIEHWRPDAIR 248
Cdd:smart00866  81 GLKivrSTRAEQTITAVLADEEEAELLGLPPGAPLLVVERVTYDDDGRPVEYSRSYYRGDRFR 143
PRK11402 PRK11402
transcriptional regulator PhoB;
37-253 1.35e-19

transcriptional regulator PhoB;


Pssm-ID: 183118 [Multi-domain]  Cd Length: 241  Bit Score: 84.89  E-value: 1.35e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754629382  37 IGSGHLAAGQQLPAERALSERFATTRITIKEALSSLEADGLIYRAERRGWFVAPPRLTYDPAIHTHFHQWIGEQQRTAET 116
Cdd:PRK11402  22 IAQGVYQAGQQIPTENELCTQYNVSRITIRKAISDLVADGVLIRWQGKGTFVQSQKVENALLTVSGFTDFGVSQGKATKE 101

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754629382 117 RVLAHGnQLASSELCRWMGLEPFTPLYEIRRQRLIDGRPV-LHVSHHLLaSRFPGIASAPLAS-SLTELYRQRYGIGQGW 194
Cdd:PRK11402 102 KVIEQE-RVSAAPFCEKLNIPGNSEVFHLCRVMYLDKEPLfIDSSWIPL-SRYPDFDEIYVEGsSTYQLFQERFDTRVVS 179

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 754629382 195 ASLEITPSAARGEIARALNLAQGSAVLRLVRVNHDEEGKLVDCDIEHWRPDAIRICLDT 253
Cdd:PRK11402 180 DKKTIDIFAATRPEAKWLKCELGEPLFRISKIAFDQNDKPVHVSELFCRANRVTLTIDN 238
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 27-89 2.12e-18

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: 77.10  E-value: 2.12e-18
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 754629382  27 EQICRTLRRYIGSGHLAAGQQLPAERALSERFATTRITIKEALSSLEADGLIYRAERRGWFVA 89
Cdd:cd07377    4 EQIADQLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFVA 66
 
Name Accession Description Interval E-value
phnR TIGR03337
phosphonate utilization transcriptional regulator PhnR; This family of proteins are members of ...
 28-253 3.78e-72

phosphonate utilization transcriptional regulator PhnR; This family of proteins are members of the GntR family (pfam00392) containing an N-terminal helix-turn-helix (HTH) motif. This clade is found adjacent to or inside of operons for the degradation of 2-aminoethylphosphonate (AEP) in Salmonella, Vibrio Aeromonas hydrophila, Hahella chejuensis and Psychromonas ingrahamii. [Regulatory functions, DNA interactions]


Pssm-ID: 132380 [Multi-domain]  Cd Length: 231  Bit Score: 220.85  E-value: 3.78e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754629382   28 QICRTLRRYIGSGHLAAGQQLPAERALSERFATTRITIKEALSSLEADGLIYRAERRGWFVAPPRLTYDPAIHTHFHQWI 107
Cdd:TIGR03337   5 YIKDHLSYQIRAGALLPGDKLPSERDLGERFNTTRVTIREALQQLEAEGLIYREDRRGWFVSPPRLRYNPTRTQNFHEYV 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754629382  108 GEQQRTAETRVLAHGNQLASSELCRWMGLEPFTPLYEIRRQRLIDGRPVLHVSHHLLASRFPGIASAPLASSLTELYRQR 187
Cdd:TIGR03337  85 REQGREPKTELIGVTVTPAPARMAELLQLQPFDRLFLLQRLRYADGRPVCYCENYILPARVPGLLKEDLNGSLTEIYRNH 164

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 754629382  188 YGIGQGWASLEITPSAARGEIARALNLAQGSAVLRLVRVNHDEEGKLVDCDIEHWRPDAIRICLDT 253
Cdd:TIGR03337 165 YGLVYHSMNLRFKPTALLEEAAQALGATAGLPALHLERTNYDQHGRVLDLDIEYWRHDALTIEVDT 230
MngR COG2188
DNA-binding transcriptional regulator, GntR family [Transcription];
19-255 4.20e-65

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


Pssm-ID: 441791 [Multi-domain]  Cd Length: 238  Bit Score: 203.17  E-value: 4.20e-65
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754629382  19 DGRIPsKCEQICRTLRRYIGSGHLAAGQQLPAERALSERFATTRITIKEALSSLEADGLIYRAERRGWFVAPPRLTYDPA 98
Cdd:COG2188    1 SSPVP-LYLQIADALRERIESGELPPGDRLPSERELAEEFGVSRMTVRKALDELVEEGLLERRQGRGTFVAEPKIEYPLS 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754629382  99 IHTHFHQWIGEQQRTAETRVLAHGNQLASSELCRWMGLEPFTPLYEIRRQRLIDGRPVLHVSHHLLASRFPGIASAPLAS 178
Cdd:COG2188   80 RLTSFTEELRARGREPSTRVLSAERVPADEEVAEALGLPPGAPVLRIERLRLADGEPVALETSYLPAALFPGLLEEDLET 159

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 754629382 179 -SLTELYRQRYGIGQGWASLEITPSAARGEIARALNLAQGSAVLRLVRVNHDEEGKLVDCDIEHWRPDAIRICLDTRA 255
Cdd:COG2188  160 gSLYELLEERYGLRITRAEQRIEAVLADAEEAELLGVPPGAPVLVIERVTYDADGRPVEYSRSYYRGDRYRFVVELRR 237
C_P_lyase_phnF TIGR02325
phosphonates metabolism transcriptional regulator PhnF; All members of the seed alignment for ...
 28-247 6.38e-31

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: 114.88  E-value: 6.38e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754629382   28 QICRTLRRYIGSGHLAAGQQLPAERALSERFATTRITIKEALSSLEADGLIYRAERRGWFVAPPRLTYDPAIHTHFHQWI 107
Cdd:TIGR02325  12 QIADKIEQEIAAGHLRAGDYLPAEMQLAERFGVNRHTVRRAIAALVERGLLRAEQGRGTFVAARRIDYPLSARTRFSQNL 91

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754629382  108 GEQQRTAETRVLAHGNQLASSELCRWMGLEPFTPLYEIRRQRLIDGRPVLHVSHHLLASRFPGIASAPLAS-SLTELYRQ 186
Cdd:TIGR02325  92 ADQGREPTGELLLSDLEPASAELADALGLTVGAPLVRLETLRKADGRPLCRATTWFPAARFPGIGQAYAASgSITDALRE 171

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 754629382  187 RYGIGQGWASLEITPSAARGEIARALNLAQGSAVLRLVRVNHDEEGKLVDCDIEHWRPDAI 247
Cdd:TIGR02325 172 QGVADYRRSSTRISARHADAKDCARLELPPGRPLLVVQALNHDGEGRPVQYSVSRFRADRV 232
UTRA pfam07702
UTRA domain; The UbiC transcription regulator-associated (UTRA) domain is a conserved ...
 109-248 6.54e-31

UTRA domain; The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain that has a similar fold to pfam04345. It is believed to modulate activity of bacterial transcription factors in response to binding small molecules sugar phosphates and urocanate, Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 429607 [Multi-domain]  Cd Length: 141  Bit Score: 111.92  E-value: 6.54e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754629382  109 EQQRTAETRVLAHGNQLASSELCRWMGLEPFTPLYEIRRQRLIDGRPVLHVSHHLLASRFPGIASAPLAS-SLTELYRQR 187
Cdd:pfam07702   1 AQGREPKTEVLSLEEVPASAEIAEALGLPPGEPVYRIERLRYADGEPVALEEDYLPAELVPDLLEEDLEEgSLYDYLEER 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 754629382  188 YGIGQGWASLEITPSAARGEIARALNLAQGSAVLRLVRVNHDEEGKLVDCDIEHWRPDAIR 248
Cdd:pfam07702  81 YGLPITRAEQTIEAVLADAEEAELLGISPGAPVLLIERVTYDQDGRPVEYSRSYYRGDRYR 141
UTRA smart00866
The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; ...
 109-248 7.62e-30

The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; It has a similar fold to HutC/FarR-like bacterial transcription factors of the GntR family. It is believed to modulate activity of bacterial transcription factors in response to binding small molecules.


Pssm-ID: 214869 [Multi-domain]  Cd Length: 143  Bit Score: 109.31  E-value: 7.62e-30
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754629382   109 EQQRTAETRVLAHGNQLASSELCRWMGLEPFTPLYEIRRQRLIDGRPVLHVSHHLLASRFPGIASAPLASSLTELYRQRY 188
Cdd:smart00866   1 AQGRKPTTKVLSFERVPADEELAEALGLPPGDPVYRIERLRLADGEPVALETTYLPAALFPGLLEEDLSGSLYEYLEERL 80

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 754629382   189 GIG---QGWASLEITPSAARGEIARALNLAQGSAVLRLVRVNHDEEGKLVDCDIEHWRPDAIR 248
Cdd:smart00866  81 GLKivrSTRAEQTITAVLADEEEAELLGLPPGAPLLVVERVTYDDDGRPVEYSRSYYRGDRFR 143
PRK11402 PRK11402
transcriptional regulator PhoB;
37-253 1.35e-19

transcriptional regulator PhoB;


Pssm-ID: 183118 [Multi-domain]  Cd Length: 241  Bit Score: 84.89  E-value: 1.35e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754629382  37 IGSGHLAAGQQLPAERALSERFATTRITIKEALSSLEADGLIYRAERRGWFVAPPRLTYDPAIHTHFHQWIGEQQRTAET 116
Cdd:PRK11402  22 IAQGVYQAGQQIPTENELCTQYNVSRITIRKAISDLVADGVLIRWQGKGTFVQSQKVENALLTVSGFTDFGVSQGKATKE 101

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754629382 117 RVLAHGnQLASSELCRWMGLEPFTPLYEIRRQRLIDGRPV-LHVSHHLLaSRFPGIASAPLAS-SLTELYRQRYGIGQGW 194
Cdd:PRK11402 102 KVIEQE-RVSAAPFCEKLNIPGNSEVFHLCRVMYLDKEPLfIDSSWIPL-SRYPDFDEIYVEGsSTYQLFQERFDTRVVS 179

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 754629382 195 ASLEITPSAARGEIARALNLAQGSAVLRLVRVNHDEEGKLVDCDIEHWRPDAIRICLDT 253
Cdd:PRK11402 180 DKKTIDIFAATRPEAKWLKCELGEPLFRISKIAFDQNDKPVHVSELFCRANRVTLTIDN 238
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 27-89 2.12e-18

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: 77.10  E-value: 2.12e-18
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 754629382  27 EQICRTLRRYIGSGHLAAGQQLPAERALSERFATTRITIKEALSSLEADGLIYRAERRGWFVA 89
Cdd:cd07377    4 EQIADQLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFVA 66
GntR pfam00392
Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the ...
 27-88 1.57e-14

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: 66.48  E-value: 1.57e-14
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 754629382   27 EQICRTLRRYIGSGHLAAGQQLPAERALSERFATTRITIKEALSSLEADGLIYRAERRGWFV 88
Cdd:pfam00392   3 EQVYARLREDILSGRLRPGDKLPSERELAAEFGVSRTTVREALRRLEAEGLVERRQGRGTFV 64
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
27-92 5.39e-14

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


Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 69.19  E-value: 5.39e-14
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 754629382  27 EQICRTLRRYIGSGHLAAGQQLPAERALSERFATTRITIKEALSSLEADGLIYRAERRGWFVAPPR 92
Cdd:COG2186   10 EQVAEQLRELILSGELKPGDRLPSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVREPS 75
HTH_GNTR smart00345
helix_turn_helix gluconate operon transcriptional repressor;
33-88 6.85e-13

helix_turn_helix gluconate operon transcriptional repressor;


Pssm-ID: 197669 [Multi-domain]  Cd Length: 60  Bit Score: 61.82  E-value: 6.85e-13
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 754629382    33 LRRYIGSGHLAAGQQLPAERALSERFATTRITIKEALSSLEADGLIYRAERRGWFV 88
Cdd:smart00345   5 LREDIVSGELRPGDKLPSERELAAQLGVSRTTVREALSRLEAEGLVQRRPGSGTFV 60
ARO8 COG1167
DNA-binding transcriptional regulator, MocR family, contains an aminotransferase domain ...
 24-98 1.67e-12

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: 66.78  E-value: 1.67e-12
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 754629382  24 SKCEQICRTLRRYIGSGHLAAGQQLPAERALSERFATTRITIKEALSSLEADGLIYRAERRGWFVAPPRLTYDPA 98
Cdd:COG1167   12 PLYLQLADALREAILSGRLPPGDRLPSSRELAAQLGVSRSTVVRAYEELEAEGLIESRPGSGTFVAARLPAPAPA 86
PRK09764 PRK09764
GntR family transcriptional regulator;
20-221 2.94e-12

GntR family transcriptional regulator;


Pssm-ID: 182065 [Multi-domain]  Cd Length: 240  Bit Score: 64.85  E-value: 2.94e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754629382  20 GRIPsKCEQICRTLRRYIGSGHLAAGQQLPAERALSERFATTRITIKEALSSLEADGLIYRAERRGWFVAPPRLTYDPAI 99
Cdd:PRK09764   2 GHKP-LYRQIADRIREQIARGELKPGDALPTESALQTEFGVSRVTVRQALRQLVEQQILESIQGSGTYVKEERVNYDIFQ 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754629382 100 HTHFHQWIGEQQRTAETRVLAHGNQLASSELCRWMGLEPFTPLYEIRRQRLIDGRPVLHVSHHLLASRFPGIASAPLASS 179
Cdd:PRK09764  81 LTSFDEKLSDRHVDTHSEVLIFEVIPADDFLQQQLQITAQDRVWHVKRVRYRKQKPMALEETWMPLALFPDLTWQVMENS 160

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|..
gi 754629382 180 LTELYRQRYGIGQGWASLEITPSAARGEIARALNLAQGSAVL 221
Cdd:PRK09764 161 KYHFIEEVKKMVIDRSEQEIIPLMPTEEMSRLLNISQTKPIL 202
YhcF COG1725
DNA-binding transcriptional regulator YhcF, GntR family [Transcription];
27-90 5.38e-11

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


Pssm-ID: 441331 [Multi-domain]  Cd Length: 114  Bit Score: 58.27  E-value: 5.38e-11
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 754629382  27 EQICRTLRRYIGSGHLAAGQQLPAERALSERFATTRITIKEALSSLEADGLIYRAERRGWFVAP 90
Cdd:COG1725   13 EQIADQIKEAIASGELKPGDRLPSVRELAAELGVNPNTVAKAYRELEDEGLIETRRGKGTFVAE 76
GntR COG1802
DNA-binding transcriptional regulator, GntR family [Transcription];
27-91 1.28e-10

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


Pssm-ID: 441407 [Multi-domain]  Cd Length: 222  Bit Score: 59.55  E-value: 1.28e-10
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 754629382  27 EQICRTLRRYIGSGHLAAGQQLPaERALSERFATTRITIKEALSSLEADGLIYRAERRGWFVAPP 91
Cdd:COG1802   14 EQVYEALREAILSGELPPGERLS-EAELAERLGVSRTPVREALRRLEAEGLVEIRPNRGARVAPL 77
pdhR PRK09464
pyruvate dehydrogenase complex transcriptional repressor PdhR;
17-88 7.22e-08

pyruvate dehydrogenase complex transcriptional repressor PdhR;


Pssm-ID: 181879 [Multi-domain]  Cd Length: 254  Bit Score: 51.95  E-value: 7.22e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 754629382  17 MTDGRI--PSKCEQICRTLRRYIGSGHLAAGQQLPAERALSERFATTRITIKEALSSLEADGLIYRAERRGWFV 88
Cdd:PRK09464   1 MAYSKIrqPKLSDVIEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFV 74
PRK09990 PRK09990
DNA-binding transcriptional regulator GlcC; Provisional
 26-113 2.71e-07

DNA-binding transcriptional regulator GlcC; Provisional


Pssm-ID: 182186 [Multi-domain]  Cd Length: 251  Bit Score: 50.54  E-value: 2.71e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754629382  26 CEQICRTLRRYIGSGHLAAGQQLPAERALSERFATTRITIKEALSSLEADGLIYRAERRGWFVAppRLTYDPAIHTHFHq 105
Cdd:PRK09990   9 ADVVAERIERLIVDGVLKVGQALPSERRLCEKLGFSRSALREGLTVLRGRGIIETAQGRGSFVA--RLNRVQDASPLMH- 85


                 ....*...
gi 754629382 106 WIGEQQRT 113
Cdd:PRK09990  86 LFSSQPRT 93
PRK10225 PRK10225
Uxu operon transcriptional regulator;
27-188 1.46e-06

Uxu operon transcriptional regulator;


Pssm-ID: 182318 [Multi-domain]  Cd Length: 257  Bit Score: 48.09  E-value: 1.46e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754629382  27 EQICRTLRRYIGSGHLAAGQQLPAERALSERFATTRITIKEALSSLEADGLIYRAERRGWFV--APPRLTYDPAiHTHFH 104
Cdd:PRK10225  12 QEVGAMIRDLIIKTPYNPGERLPPEREIAEMLDVTRTVVREALIMLEIKGLVEVRRGAGIYVldSSGSHNTDSP-DANVC 90

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754629382 105 QWIGEQQrtaetrvLAHGNQLASSELCRWMGLEPftplyeiRRQRLIDGRPVLHVSHHLLASRFPG------------IA 172
Cdd:PRK10225  91 NDAGPFE-------LLQARQLLESNIAEFAALQA-------TREDIVKMRQALQLEERELASSAPGssesgdmqfhlaIA 156

                        170
                 ....*....|....*.
gi 754629382 173 SAPLASSLTELYRQRY 188
Cdd:PRK10225 157 EATHNSMLVELFRQSW 172
PRK03837 PRK03837
transcriptional regulator NanR; Provisional
 33-78 2.67e-06

transcriptional regulator NanR; Provisional


Pssm-ID: 235166 [Multi-domain]  Cd Length: 241  Bit Score: 47.32  E-value: 2.67e-06
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 754629382  33 LRRYIGSGHLAAGQQLPAERALSERFATTRITIKEALSSLEADGLI 78
Cdd:PRK03837  22 LEQMIRSGEFGPGDQLPSERELMAFFGVGRPAVREALQALKRKGLV 67
PRK10421 PRK10421
DNA-binding transcriptional repressor LldR; Provisional
 27-85 4.48e-06

DNA-binding transcriptional repressor LldR; Provisional


Pssm-ID: 236690 [Multi-domain]  Cd Length: 253  Bit Score: 46.68  E-value: 4.48e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 754629382  27 EQICRTLRRYIGSGHLAAGQQLPAERALSERFATTRITIKEALSSLEADGLIyrAERRG 85
Cdd:PRK10421   5 DEVADRVRALIEEKNLEAGMKLPAERQLAMQLGVSRNSLREALAKLVSEGVL--LSRRG 61
PRK10079 PRK10079
phosphonate metabolism transcriptional regulator PhnF; Provisional
 39-252 1.87e-05

phosphonate metabolism transcriptional regulator PhnF; Provisional


Pssm-ID: 182227 [Multi-domain]  Cd Length: 241  Bit Score: 44.77  E-value: 1.87e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754629382  39 SGHLAAGQQLPAERALSERFATTRITIKEALSSLEADGLIYRaeRRGWFVAPPRLTYDPAIH--THFHQWIGEQQRTAET 116
Cdd:PRK10079  26 RQHYRCGDYLPAEQQLAARYEVNRHTLRRAIDQLVEKGWVQR--RQGVGVLVLMRPYDYPLNaqARFSQNLLDQGSHPTS 103

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 754629382 117 RVLAHGNQLASSELCRWMGLEPFTPLYEIRRQRLIDGRPVLHVSHHLLASRFPGIASAPLASSLTELYRQRYGIGQGWAS 196
Cdd:PRK10079 104 EKLLSVLRPASGHVADALGITEGENVIHLRTLRRVNGVALCLIDHYFADLTWWPTLQRFDSGSLHDFLREQLGIALRRSQ 183

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 754629382 197 LEITPSAARGEIARALNLAQGSAVLRLVRVNH-DEEGKLVDCDIEHWRPDAIRICLD 252
Cdd:PRK10079 184 TRISARRAQAKESQLLEIPNMSPLLCVRTLNHrDGESSPAEYSVSLTRADMIEFTME 240
PRK04984 PRK04984
fatty acid metabolism transcriptional regulator FadR;
37-76 2.82e-04

fatty acid metabolism transcriptional regulator FadR;


Pssm-ID: 179909 [Multi-domain]  Cd Length: 239  Bit Score: 41.39  E-value: 2.82e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 754629382  37 IGSGHLAAGQQLPAERALSERFATTRITIKEALSSLEADG 76
Cdd:PRK04984  20 IWNNRFPPGSILPAERELSELIGVTRTTLREVLQRLARDG 59
PRK11523 PRK11523
transcriptional regulator ExuR;
27-78 5.74e-04

transcriptional regulator ExuR;


Pssm-ID: 183176 [Multi-domain]  Cd Length: 253  Bit Score: 40.21  E-value: 5.74e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 754629382  27 EQICRTLRRYIGSGHLAAGQQLPAERALSERFATTRITIKEALSSLEADGLI 78
Cdd:PRK11523  11 QQLAAELKERIEQGVYLVGDKLPAERFIADEKNVSRTVVREAIIMLEVEGYV 62
PRK14999 PRK14999
histidine utilization repressor; Provisional
 27-92 1.67e-03

histidine utilization repressor; Provisional


Pssm-ID: 184961 [Multi-domain]  Cd Length: 241  Bit Score: 38.76  E-value: 1.67e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 754629382  27 EQICRTLRRYIGSGHLAAGQQLPAERALSERFATTRITIKEALSSLEADGLIYRAERRGWFVAPPR 92
Cdd:PRK14999  15 ETVKQDICKKIAGGVWQPHDRIPSEAELVAQYGFSRMTINRALRELTDEGWLVRLQGVGTFVAEPK 80
 
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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