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Conserved domains on  [gi|446284195|ref|WP_000362050|]
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MULTISPECIES: DNA-binding transcriptional regulator [Enterobacteriaceae]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 11459264)

helix-turn-helix (HTH) domain-containing protein with an XRE (Xenobiotic Response Element) family HTH domain, binds DNA and may function as a transcriptional regulator

CATH:  1.10.10.10
Gene Ontology:  GO:0003677
PubMed:  15808743|2644244|8831795
SCOP:  4000362

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
32-88 1.53e-20

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


:

Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 77.28  E-value: 1.53e-20
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 446284195 32 IDAMKIKEIRQASGLSQSKFAELISVNVDTLRNWEQGRRSPTGPAKALLRAIANDPR 88
Cdd:COG2944   6 LTPEEIRALRERLGLSQAEFAALLGVSVSTVRRWEQGRRKPSGAALKLLRLLEKHPE 62
 
Name Accession Description Interval E-value
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
32-88 1.53e-20

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


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 77.28  E-value: 1.53e-20
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 446284195 32 IDAMKIKEIRQASGLSQSKFAELISVNVDTLRNWEQGRRSPTGPAKALLRAIANDPR 88
Cdd:COG2944   6 LTPEEIRALRERLGLSQAEFAALLGVSVSTVRRWEQGRRKPSGAALKLLRLLEKHPE 62
NadS NF041265
NadS family protein;
5-87 1.70e-15

NadS family protein;


Pssm-ID: 469165  Cd Length: 94  Bit Score: 65.58  E-value: 1.70e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446284195  5 LFERLTQSMSQMNEIIEGTREPSRTFHIDAMKIKEIRQASGLSQSKFAELISVNVDTLRNWEQGRRSPTGPAKALLRAIA 84
Cdd:NF041265  3 FFDELKASLEEAVEIKNGVKAPARVTRYEVADVKAIRAQLNVSQAEMAKALGTSVDTIKSWESKRRNPTGLAAKVLATIQ 82


                ...
gi 446284195 85 NDP 87
Cdd:NF041265 83 DNP 85
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
36-83 7.86e-09

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 47.13  E-value: 7.86e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 446284195   36 KIKEIRQASGLSQSKFAELISVNVDTLRNWEQGRRSPTGP-AKALLRAI 83
Cdd:smart00530  1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLEtLKKLAKAL 49
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 36-85 1.64e-08

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: 46.39  E-value: 1.64e-08
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|
gi 446284195 36 KIKEIRQASGLSQSKFAELISVNVDTLRNWEQGRRSPTgpaKALLRAIAN 85
Cdd:cd00093   3 RLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPS---LETLEKLAK 49
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 37-83 4.92e-07

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: 42.53  E-value: 4.92e-07
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 446284195  37 IKEIRQASGLSQSKFAELISVNVDTLRNWEQGRRSPTGP-AKALLRAI 83
Cdd:pfam01381  1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLEtLKKLAEAL 48
CxxCG_CxxCG_HTH TIGR03830
putative zinc finger/helix-turn-helix protein, YgiT family; This model describes a family of ...
 37-87 4.54e-05

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: 39.15  E-value: 4.54e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 446284195   37 IKEIRQASGLSQSKFAELISVNVDTLRNWEQGRRSPTGPAKALLRAIANDP 87
Cdd:TIGR03830  70 IRRIRKKLGLSQREAAELLGGGVNAFSRYERGEVRPSKALDKLLRLLDKHP 120
PRK10072 PRK10072
HTH-type transcriptional regulator;
37-88 4.00e-04

HTH-type transcriptional regulator;


Pssm-ID: 182222  Cd Length: 96  Bit Score: 36.31  E-value: 4.00e-04
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|..
gi 446284195 37 IKEIRQASGLSQSKFAELISVNVDTLRNWEQGRRSPTGPAKALLRAIANDPR 88
Cdd:PRK10072 38 FEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSSAELKLMRLIQANPA 89
 
Name Accession Description Interval E-value
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
32-88 1.53e-20

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


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 77.28  E-value: 1.53e-20
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 446284195 32 IDAMKIKEIRQASGLSQSKFAELISVNVDTLRNWEQGRRSPTGPAKALLRAIANDPR 88
Cdd:COG2944   6 LTPEEIRALRERLGLSQAEFAALLGVSVSTVRRWEQGRRKPSGAALKLLRLLEKHPE 62
NadS NF041265
NadS family protein;
5-87 1.70e-15

NadS family protein;


Pssm-ID: 469165  Cd Length: 94  Bit Score: 65.58  E-value: 1.70e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446284195  5 LFERLTQSMSQMNEIIEGTREPSRTFHIDAMKIKEIRQASGLSQSKFAELISVNVDTLRNWEQGRRSPTGPAKALLRAIA 84
Cdd:NF041265  3 FFDELKASLEEAVEIKNGVKAPARVTRYEVADVKAIRAQLNVSQAEMAKALGTSVDTIKSWESKRRNPTGLAAKVLATIQ 82


                ...
gi 446284195 85 NDP 87
Cdd:NF041265 83 DNP 85
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
34-85 7.18e-09

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 48.07  E-value: 7.18e-09
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|..
gi 446284195 34 AMKIKEIRQASGLSQSKFAELISVNVDTLRNWEQGRRSPTgpaKALLRAIAN 85
Cdd:COG1396   9 GERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPS---LETLLKLAK 57
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
36-83 7.86e-09

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 47.13  E-value: 7.86e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 446284195   36 KIKEIRQASGLSQSKFAELISVNVDTLRNWEQGRRSPTGP-AKALLRAI 83
Cdd:smart00530  1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLEtLKKLAKAL 49
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 36-84 1.59e-08

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: 46.85  E-value: 1.59e-08
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*....
gi 446284195 36 KIKEIRQASGLSQSKFAELISVNVDTLRNWEQGRRSPTGpakALLRAIA 84
Cdd:COG1813  16 RIREAREARGLSQEELAEKLGVSESTIRRIERGEATPSL---DTLRKLE 61
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 36-85 1.64e-08

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: 46.39  E-value: 1.64e-08
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|
gi 446284195 36 KIKEIRQASGLSQSKFAELISVNVDTLRNWEQGRRSPTgpaKALLRAIAN 85
Cdd:cd00093   3 RLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPS---LETLEKLAK 49
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
36-85 6.40e-08

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 45.22  E-value: 6.40e-08
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|
gi 446284195 36 KIKEIRQASGLSQSKFAELISVNVDTLRNWEQGRRSPTgpaKALLRAIAN 85
Cdd:COG1476   8 RLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPS---LELALKIAR 54
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 37-83 4.92e-07

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: 42.53  E-value: 4.92e-07
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 446284195  37 IKEIRQASGLSQSKFAELISVNVDTLRNWEQGRRSPTGP-AKALLRAI 83
Cdd:pfam01381  1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLEtLKKLAEAL 48
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 37-85 3.34e-05

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: 38.28  E-value: 3.34e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 446284195  37 IKEIRQASGLSQSKFAELISVNVDTLRNWEQGRRSPtgPAKALLRAIAN 85
Cdd:pfam13560  6 LRRLRERAGLSQEALARRLGVSRSTLSRLETGRRGR--PSPAVVERLAR 52
CxxCG_CxxCG_HTH TIGR03830
putative zinc finger/helix-turn-helix protein, YgiT family; This model describes a family of ...
 37-87 4.54e-05

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: 39.15  E-value: 4.54e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 446284195   37 IKEIRQASGLSQSKFAELISVNVDTLRNWEQGRRSPTGPAKALLRAIANDP 87
Cdd:TIGR03830  70 IRRIRKKLGLSQREAAELLGGGVNAFSRYERGEVRPSKALDKLLRLLDKHP 120
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 37-91 7.38e-05

Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain CBS pair) [Transcription];


Pssm-ID: 442838 [Multi-domain]  Cd Length: 95  Bit Score: 38.08  E-value: 7.38e-05
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 446284195 37 IKEIRQASGLSQSKFAELISVNVDTLRNWEQGRRSPTGPA-KALLRAIANDPRNVI 91
Cdd:COG3620  22 LRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTlEKIAEALGKELSAVL 77
PRK10072 PRK10072
HTH-type transcriptional regulator;
37-88 4.00e-04

HTH-type transcriptional regulator;


Pssm-ID: 182222  Cd Length: 96  Bit Score: 36.31  E-value: 4.00e-04
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|..
gi 446284195 37 IKEIRQASGLSQSKFAELISVNVDTLRNWEQGRRSPTGPAKALLRAIANDPR 88
Cdd:PRK10072 38 FEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSSAELKLMRLIQANPA 89
RodZ COG1426
Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell ...
 36-85 5.86e-04

Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 441035 [Multi-domain]  Cd Length: 71  Bit Score: 35.17  E-value: 5.86e-04
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|...
gi 446284195 36 KIKEIRQASGLSQSKFAELISVNVDTLRNWEQGRRS---PTGPAKALLRAIAN 85
Cdd:COG1426   9 LLRQAREAKGLSLEDVAERTKISVSYLEAIEEGDFDalpGPVYVRGFLRSYAR 61
 
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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