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Conserved domains on  [gi|2058564633|gb|QXB36195|]
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HTH-type transcriptional regulator (plasmid) [Enterobacter hormaechei]

Protein Classification

transcriptional regulator( domain architecture ID 10793339)

helix-turn-helix-type transcriptional regulator

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK10072 PRK10072
HTH-type transcriptional regulator;
1-94 4.64e-55

HTH-type transcriptional regulator;


:

Pssm-ID: 182222  Cd Length: 96  Bit Score: 165.73  E-value: 4.64e-55
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2058564633  1 MELKDPEFELLSSLEQIIFKDVPPTVTLNQKSNPFSEFERLRKGSGLKTDEFARAMGVSVAMVLEWESKREKPTPAELKL 80
Cdd:PRK10072   1 MEYKDPMFELLSSLEQIVFKDETQKITLTQKTTSFTEFEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSSAELKL 80

                         90
                 ....*....|....
gi 2058564633 81 MRLIQANPDLRKQL 94
Cdd:PRK10072  81 MRLIQANPALSKQL 94
 
Name Accession Description Interval E-value
PRK10072 PRK10072
HTH-type transcriptional regulator;
1-94 4.64e-55

HTH-type transcriptional regulator;


Pssm-ID: 182222  Cd Length: 96  Bit Score: 165.73  E-value: 4.64e-55
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2058564633  1 MELKDPEFELLSSLEQIIFKDVPPTVTLNQKSNPFSEFERLRKGSGLKTDEFARAMGVSVAMVLEWESKREKPTPAELKL 80
Cdd:PRK10072   1 MEYKDPMFELLSSLEQIVFKDETQKITLTQKTTSFTEFEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSSAELKL 80

                         90
                 ....*....|....
gi 2058564633 81 MRLIQANPDLRKQL 94
Cdd:PRK10072  81 MRLIQANPALSKQL 94
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
37-90 6.58e-15

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


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 63.03  E-value: 6.58e-15
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 2058564633 37 EFERLRKGSGLKTDEFARAMGVSVAMVLEWESKREKPTPAELKLMRLIQANPDL 90
Cdd:COG2944   10 EIRALRERLGLSQAEFAALLGVSVSTVRRWEQGRRKPSGAALKLLRLLEKHPEL 63
NadS NF041265
NadS family protein;
51-95 3.94e-08

NadS family protein;


Pssm-ID: 469165  Cd Length: 94  Bit Score: 46.32  E-value: 3.94e-08
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 2058564633 51 EFARAMGVSVAMVLEWESKREKPTPAELKLMRLIQANPDLRKQLA 95
Cdd:NF041265  48 EMAKALGTSVDTIKSWESKRRNPTGLAAKVLATIQDNPAFFKELA 92
CxxCG_CxxCG_HTH TIGR03830
putative zinc finger/helix-turn-helix protein, YgiT family; This model describes a family of ...
 36-95 2.73e-06

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: 42.23  E-value: 2.73e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2058564633  36 SEFERLRKGSGLKTDEFARAMGVSVAMVLEWESKREKPTPAELKLMRLIQANPDLRKQLA 95
Cdd:TIGR03830  68 PEIRRIRKKLGLSQREAAELLGGGVNAFSRYERGEVRPSKALDKLLRLLDKHPELLEELR 127
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
40-81 5.55e-05

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 37.50  E-value: 5.55e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 2058564633  40 RLRKGSGLKTDEFARAMGVSVAMVLEWESKREKPTPAELKLM 81
Cdd:smart00530  4 ELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKL 45
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 40-81 2.10e-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: 35.99  E-value: 2.10e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 2058564633 40 RLRKGSGLKTDEFARAMGVSVAMVLEWESKREKPTPAELKLM 81
Cdd:cd00093    6 ELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKL 47
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 37-94 1.23e-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: 34.04  E-value: 1.23e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2058564633 37 EFERLRKGSGLKTDEFARAMGVSVAMVLEWES-KREKPTPAEL-KLMRLIQANPDLRKQL 94
Cdd:pfam13560  5 RLRRLRERAGLSQEALARRLGVSRSTLSRLETgRRGRPSPAVVeRLARALGVDGAERAEL 64
 
Name Accession Description Interval E-value
PRK10072 PRK10072
HTH-type transcriptional regulator;
1-94 4.64e-55

HTH-type transcriptional regulator;


Pssm-ID: 182222  Cd Length: 96  Bit Score: 165.73  E-value: 4.64e-55
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2058564633  1 MELKDPEFELLSSLEQIIFKDVPPTVTLNQKSNPFSEFERLRKGSGLKTDEFARAMGVSVAMVLEWESKREKPTPAELKL 80
Cdd:PRK10072   1 MEYKDPMFELLSSLEQIVFKDETQKITLTQKTTSFTEFEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSSAELKL 80

                         90
                 ....*....|....
gi 2058564633 81 MRLIQANPDLRKQL 94
Cdd:PRK10072  81 MRLIQANPALSKQL 94
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
37-90 6.58e-15

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


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 63.03  E-value: 6.58e-15
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 2058564633 37 EFERLRKGSGLKTDEFARAMGVSVAMVLEWESKREKPTPAELKLMRLIQANPDL 90
Cdd:COG2944   10 EIRALRERLGLSQAEFAALLGVSVSTVRRWEQGRRKPSGAALKLLRLLEKHPEL 63
NadS NF041265
NadS family protein;
51-95 3.94e-08

NadS family protein;


Pssm-ID: 469165  Cd Length: 94  Bit Score: 46.32  E-value: 3.94e-08
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 2058564633 51 EFARAMGVSVAMVLEWESKREKPTPAELKLMRLIQANPDLRKQLA 95
Cdd:NF041265  48 EMAKALGTSVDTIKSWESKRRNPTGLAAKVLATIQDNPAFFKELA 92
CxxCG_CxxCG_HTH TIGR03830
putative zinc finger/helix-turn-helix protein, YgiT family; This model describes a family of ...
 36-95 2.73e-06

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: 42.23  E-value: 2.73e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2058564633  36 SEFERLRKGSGLKTDEFARAMGVSVAMVLEWESKREKPTPAELKLMRLIQANPDLRKQLA 95
Cdd:TIGR03830  68 PEIRRIRKKLGLSQREAAELLGGGVNAFSRYERGEVRPSKALDKLLRLLDKHPELLEELR 127
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
40-81 5.55e-05

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 37.50  E-value: 5.55e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 2058564633  40 RLRKGSGLKTDEFARAMGVSVAMVLEWESKREKPTPAELKLM 81
Cdd:smart00530  4 ELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKL 45
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 40-81 2.10e-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: 35.99  E-value: 2.10e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 2058564633 40 RLRKGSGLKTDEFARAMGVSVAMVLEWESKREKPTPAELKLM 81
Cdd:cd00093    6 ELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKL 47
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 37-94 1.23e-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: 34.04  E-value: 1.23e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2058564633 37 EFERLRKGSGLKTDEFARAMGVSVAMVLEWES-KREKPTPAEL-KLMRLIQANPDLRKQL 94
Cdd:pfam13560  5 RLRRLRERAGLSQEALARRLGVSRSTLSRLETgRRGRPSPAVVeRLARALGVDGAERAEL 64
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
40-79 1.36e-03

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 34.59  E-value: 1.36e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 2058564633 40 RLRKGSGLKTDEFARAMGVSVAMVLEWESKREKPTPAELK 79
Cdd:COG1396   14 ELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLL 53
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 39-81 2.81e-03

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: 32.90  E-value: 2.81e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 2058564633 39 ERLRKGSGLKTDEFARAMGVSVAMVLEWESKREKPTPAELKLM 81
Cdd:pfam01381  2 KELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKL 44
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 40-81 4.69e-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: 32.60  E-value: 4.69e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 2058564633 40 RLRKGSGLKTDEFARAMGVSVAMVLEWESKREKPTPAELKLM 81
Cdd:COG1813   19 EAREARGLSQEELAEKLGVSESTIRRIERGEATPSLDTLRKL 60
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 37-89 8.57e-03

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: 32.68  E-value: 8.57e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 2058564633 37 EFERLRKGSGLKTDEFARAMGVSVAMVLEWESKREKPTPAEL-KLMRLIQANPD 89
Cdd:COG3620   21 ALRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLeKIAEALGKELS 74
 
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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