NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|16131426|ref|NP_418011|]
View 

putative DNA-binding transcriptional regulator YiaG [Escherichia coli str. K-12 substr. MG1655]

Protein Classification

transcriptional regulator( domain architecture ID 10793339)

helix-turn-helix-type transcriptional regulator

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
PRK10072 PRK10072
HTH-type transcriptional regulator;
1-96 1.54e-61

HTH-type transcriptional regulator;


:

Pssm-ID: 182222  Cd Length: 96  Bit Score: 181.91  E-value: 1.54e-61
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131426   1 MEYKDPMHELLSSLEQIVFKDETQKITLTHRTTSCTEIEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSSAELKL 80
Cdd:PRK10072  1 MEYKDPMFELLSSLEQIVFKDETQKITLTQKTTSFTEFEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSSAELKL 80

                        90
                ....*....|....*.
gi 16131426  81 MRLIQANPALSKQLME 96
Cdd:PRK10072 81 MRLIQANPALSKQLME 96
 
Name Accession Description Interval E-value
PRK10072 PRK10072
HTH-type transcriptional regulator;
1-96 1.54e-61

HTH-type transcriptional regulator;


Pssm-ID: 182222  Cd Length: 96  Bit Score: 181.91  E-value: 1.54e-61
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131426   1 MEYKDPMHELLSSLEQIVFKDETQKITLTHRTTSCTEIEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSSAELKL 80
Cdd:PRK10072  1 MEYKDPMFELLSSLEQIVFKDETQKITLTQKTTSFTEFEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSSAELKL 80

                        90
                ....*....|....*.
gi 16131426  81 MRLIQANPALSKQLME 96
Cdd:PRK10072 81 MRLIQANPALSKQLME 96
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
29-90 3.61e-16

DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 66.11  E-value: 3.61e-16
                       10        20        30        40        50        60
               ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 16131426 29 THRTTSCTEIEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSSAELKLMRLIQANPAL 90
Cdd:COG2944  2 TKKPLTPEEIRALRERLGLSQAEFAALLGVSVSTVRRWEQGRRKPSGAALKLLRLLEKHPEL 63
CxxCG_CxxCG_HTH TIGR03830
putative zinc finger/helix-turn-helix protein, YgiT family; This model describes a family of ...
 37-94 1.29e-08

putative zinc finger/helix-turn-helix protein, YgiT family; This model describes a family of predicted regulatory proteins with a conserved zinc finger/HTH architecture. The amino-terminal region contains a novel domain, featuring two CXXC motifs and occuring in a number of small bacterial proteins as well as in the present family. The carboxyl-terminal region consists of a helix-turn-helix domain, modeled by pfam01381. The predicted function is DNA binding and transcriptional regulation.


Pssm-ID: 274805 [Multi-domain]  Cd Length: 127  Bit Score: 48.40  E-value: 1.29e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 16131426    37 EIEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSSAELKLMRLIQANPALSKQL 94
Cdd:TIGR03830  69 EIRRIRKKLGLSQREAAELLGGGVNAFSRYERGEVRPSKALDKLLRLLDKHPELLEEL 126
NadS NF041265
NadS family protein;
9-94 5.07e-07

NadS family protein;


Pssm-ID: 469165  Cd Length: 94  Bit Score: 43.62  E-value: 5.07e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131426   9 ELLSSLEQIVfkDETQKITLTHRTTS--CTEIEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSSAELKLMRLIQA 86
Cdd:NF041265  6 ELKASLEEAV--EIKNGVKAPARVTRyeVADVKAIRAQLNVSQAEMAKALGTSVDTIKSWESKRRNPTGLAAKVLATIQD 83


                ....*...
gi 16131426  87 NPALSKQL 94
Cdd:NF041265 84 NPAFFKEL 91
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
37-81 1.02e-05

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 39.42  E-value: 1.02e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 16131426    37 EIEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSSAELKLM 81
Cdd:smart00530  1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKL 45
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 38-81 1.05e-04

Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.


Pssm-ID: 238045 [Multi-domain]  Cd Length: 58  Bit Score: 36.76  E-value: 1.05e-04
                       10        20        30        40
               ....*....|....*....|....*....|....*....|....
gi 16131426 38 IEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSSAELKLM 81
Cdd:cd00093  4 LKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKL 47
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 38-81 4.33e-04

Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and CI. Within the protein Swiss:Q5F9C2, the full protein fold incorporates a helix-turn-helix motif, but the function of this member is unlikely to be that of a DNA-binding regulator, the function of most other members, so is not necessarily characteriztic of the whole family.


Pssm-ID: 460181 [Multi-domain]  Cd Length: 55  Bit Score: 35.21  E-value: 4.33e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 16131426   38 IEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSSAELKLM 81
Cdd:pfam01381  1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKL 44
 
Name Accession Description Interval E-value
PRK10072 PRK10072
HTH-type transcriptional regulator;
1-96 1.54e-61

HTH-type transcriptional regulator;


Pssm-ID: 182222  Cd Length: 96  Bit Score: 181.91  E-value: 1.54e-61
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131426   1 MEYKDPMHELLSSLEQIVFKDETQKITLTHRTTSCTEIEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSSAELKL 80
Cdd:PRK10072  1 MEYKDPMFELLSSLEQIVFKDETQKITLTQKTTSFTEFEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSSAELKL 80

                        90
                ....*....|....*.
gi 16131426  81 MRLIQANPALSKQLME 96
Cdd:PRK10072 81 MRLIQANPALSKQLME 96
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
29-90 3.61e-16

DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 66.11  E-value: 3.61e-16
                       10        20        30        40        50        60
               ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 16131426 29 THRTTSCTEIEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSSAELKLMRLIQANPAL 90
Cdd:COG2944  2 TKKPLTPEEIRALRERLGLSQAEFAALLGVSVSTVRRWEQGRRKPSGAALKLLRLLEKHPEL 63
CxxCG_CxxCG_HTH TIGR03830
putative zinc finger/helix-turn-helix protein, YgiT family; This model describes a family of ...
 37-94 1.29e-08

putative zinc finger/helix-turn-helix protein, YgiT family; This model describes a family of predicted regulatory proteins with a conserved zinc finger/HTH architecture. The amino-terminal region contains a novel domain, featuring two CXXC motifs and occuring in a number of small bacterial proteins as well as in the present family. The carboxyl-terminal region consists of a helix-turn-helix domain, modeled by pfam01381. The predicted function is DNA binding and transcriptional regulation.


Pssm-ID: 274805 [Multi-domain]  Cd Length: 127  Bit Score: 48.40  E-value: 1.29e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 16131426    37 EIEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSSAELKLMRLIQANPALSKQL 94
Cdd:TIGR03830  69 EIRRIRKKLGLSQREAAELLGGGVNAFSRYERGEVRPSKALDKLLRLLDKHPELLEEL 126
NadS NF041265
NadS family protein;
9-94 5.07e-07

NadS family protein;


Pssm-ID: 469165  Cd Length: 94  Bit Score: 43.62  E-value: 5.07e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16131426   9 ELLSSLEQIVfkDETQKITLTHRTTS--CTEIEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSSAELKLMRLIQA 86
Cdd:NF041265  6 ELKASLEEAV--EIKNGVKAPARVTRyeVADVKAIRAQLNVSQAEMAKALGTSVDTIKSWESKRRNPTGLAAKVLATIQD 83


                ....*...
gi 16131426  87 NPALSKQL 94
Cdd:NF041265 84 NPAFFKEL 91
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
37-81 1.02e-05

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 39.42  E-value: 1.02e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 16131426    37 EIEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSSAELKLM 81
Cdd:smart00530  1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKL 45
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 38-81 1.05e-04

Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.


Pssm-ID: 238045 [Multi-domain]  Cd Length: 58  Bit Score: 36.76  E-value: 1.05e-04
                       10        20        30        40
               ....*....|....*....|....*....|....*....|....
gi 16131426 38 IEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSSAELKLM 81
Cdd:cd00093  4 LKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKL 47
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 38-81 4.33e-04

Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and CI. Within the protein Swiss:Q5F9C2, the full protein fold incorporates a helix-turn-helix motif, but the function of this member is unlikely to be that of a DNA-binding regulator, the function of most other members, so is not necessarily characteriztic of the whole family.


Pssm-ID: 460181 [Multi-domain]  Cd Length: 55  Bit Score: 35.21  E-value: 4.33e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 16131426   38 IEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSSAELKLM 81
Cdd:pfam01381  1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKL 44
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
38-79 4.69e-04

Transcriptional regulator, contains XRE-family HTH domain [Transcription];


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 35.74  E-value: 4.69e-04
                       10        20        30        40
               ....*....|....*....|....*....|....*....|..
gi 16131426 38 IEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSSAELK 79
Cdd:COG1396 12 LRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLL 53
MqsA_antitoxin pfam15731
Antitoxin component of bacterial toxin-antitoxin system, MqsA; MqsA_antitoxin is a family of ...
 36-94 2.77e-03

Antitoxin component of bacterial toxin-antitoxin system, MqsA; MqsA_antitoxin is a family of prokaryotic proteins that act as antidotes to the mRNA interferase MqsR. It has a zinc-binding at the very N-terminus indicating its DNA-binding capacity. MqsR is the gene most highly upregulated in E. Colo MqsR_toxin is a family of bacterial toxins that act as an mRNA interferase. MqsR is the gene most highly upregulated in E. coli persister cells and it plays an essential role in biofilm regulation and cell signalling. It forms part of a bacterial toxin-antitoxin TA system, and as expected for a TA system, the expression of the MqsR toxin leads to growth arrest, while co-expression with its antitoxin, MqsA, rescues the growth arrest phenotype. In addition, MqsR associates with MqsA to form a tight, non-toxic complex and both MqsA alone and the MqsR:MqsA2:MqsR complex bind and regulate the mqsR promoter. The structure of MqsR shows that is is a member of the RelE/YoeB family of bacterial RNases that are structurally and functionally characterized bacterial toxins.


Pssm-ID: 292359 [Multi-domain]  Cd Length: 131  Bit Score: 34.28  E-value: 2.77e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 16131426    36 TEIEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSSAELKLMRLIQANPALSKQL 94
Cdd:pfam15731  72 AFIARVRKKLGLDQREAAEIFGGGVNAFSRYENGKTRPPLALVKLLRLLDRHPELLEEI 130
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 38-81 3.01e-03

Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and HTH domains [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441418 [Multi-domain]  Cd Length: 70  Bit Score: 33.37  E-value: 3.01e-03
                       10        20        30        40
               ....*....|....*....|....*....|....*....|....
gi 16131426 38 IEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSSAELKLM 81
Cdd:COG1813 17 IREAREARGLSQEELAEKLGVSESTIRRIERGEATPSLDTLRKL 60
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 37-90 3.64e-03

Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.


Pssm-ID: 433309 [Multi-domain]  Cd Length: 64  Bit Score: 32.89  E-value: 3.64e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 16131426   37 EIEQLRKGTGLKIDDFARVLGVSVAMVKEWES-RRVKPSSAEL-KLMRLIQANPAL 90
Cdd:pfam13560  5 RLRRLRERAGLSQEALARRLGVSRSTLSRLETgRRGRPSPAVVeRLARALGVDGAE 60
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
38-84 4.52e-03

DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 32.90  E-value: 4.52e-03
                       10        20        30        40
               ....*....|....*....|....*....|....*....|....*..
gi 16131426 38 IEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSsaeLKLMRLI 84
Cdd:COG1476  9 LKELRKERGLTQEELAELLGVSRQTISAIENGKYNPS---LELALKI 52
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH