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Conserved domains on  [gi|449330912|gb|AGE96939|]
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putative Cro-like protein [Bacteriophage APSE]

Protein Classification

helix-turn-helix transcriptional regulator( domain architecture ID 10009724)

helix-turn-helix (HTH) transcriptional regulator containing a XRE (Xenobiotic Response Element) family HTH domain

CATH:  1.10.10.10
Gene Ontology:  GO:0003677
PubMed:  15808743
SCOP:  4000362

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PHA00542 PHA00542
putative Cro-like protein
 5-86 3.01e-48

putative Cro-like protein


:

Pssm-ID: 106954  Cd Length: 82  Bit Score: 148.02  E-value: 3.01e-48
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 449330912  5 IFKHLKEMNNWRKTVYKKSPIEIVQALLAQGLTQSEIEANTGIKQPSISRILTGKNKDPRISTMVALEKLYLELATNSFS 84
Cdd:PHA00542  1 MEKAMPATTPTIPAAYTQRPDELVCALIRAGWSQEQIADATDVSQPTICRIYSGRHKDPRYSVVEKLRHLVLNLDDFQQV 80


                ..
gi 449330912 85 TS 86
Cdd:PHA00542 81 TR 82
 
Name Accession Description Interval E-value
PHA00542 PHA00542
putative Cro-like protein
 5-86 3.01e-48

putative Cro-like protein


Pssm-ID: 106954  Cd Length: 82  Bit Score: 148.02  E-value: 3.01e-48
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 449330912  5 IFKHLKEMNNWRKTVYKKSPIEIVQALLAQGLTQSEIEANTGIKQPSISRILTGKNKDPRISTMVALEKLYLELATNSFS 84
Cdd:PHA00542  1 MEKAMPATTPTIPAAYTQRPDELVCALIRAGWSQEQIADATDVSQPTICRIYSGRHKDPRYSVVEKLRHLVLNLDDFQQV 80


                ..
gi 449330912 85 TS 86
Cdd:PHA00542 81 TR 82
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
26-75 8.73e-06

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 39.42  E-value: 8.73e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 449330912   26 EIVQALLAQGLTQSEIEANTGIKQPSISRILTGKNKdPRISTMVALEKLY 75
Cdd:smart00530  1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRK-PSLETLKKLAKAL 49
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 27-75 2.88e-05

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: 38.30  E-value: 2.88e-05
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*....
gi 449330912 27 IVQALLAQGLTQSEIEANTGIKQPSISRILTGKNKdPRISTMVALEKLY 75
Cdd:cd00093   4 LKELRKEKGLTQEELAEKLGVSRSTISRIENGKRN-PSLETLEKLAKAL 51
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 27-75 1.37e-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: 36.36  E-value: 1.37e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 449330912  27 IVQALLAQGLTQSEIEANTGIKQPSISRILTGKNKdPRISTMVALEKLY 75
Cdd:pfam01381  1 LKELREELGLSQEELAEKLGVSRSTISKIENGKRE-PSLETLKKLAEAL 48
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 26-74 1.89e-04

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: 36.92  E-value: 1.89e-04
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*....
gi 449330912 26 EIVQALLAQGLTQSEIEANTGIKQPSISRILTGKnKDPRISTMVALEKL 74
Cdd:COG3620  21 ALRLMRKELGLSQLPVAELVGVSQSDILRIESGK-RDPTVSTLEKIAEA 68
 
Name Accession Description Interval E-value
PHA00542 PHA00542
putative Cro-like protein
 5-86 3.01e-48

putative Cro-like protein


Pssm-ID: 106954  Cd Length: 82  Bit Score: 148.02  E-value: 3.01e-48
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 449330912  5 IFKHLKEMNNWRKTVYKKSPIEIVQALLAQGLTQSEIEANTGIKQPSISRILTGKNKDPRISTMVALEKLYLELATNSFS 84
Cdd:PHA00542  1 MEKAMPATTPTIPAAYTQRPDELVCALIRAGWSQEQIADATDVSQPTICRIYSGRHKDPRYSVVEKLRHLVLNLDDFQQV 80


                ..
gi 449330912 85 TS 86
Cdd:PHA00542 81 TR 82
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
26-75 8.73e-06

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 39.42  E-value: 8.73e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 449330912   26 EIVQALLAQGLTQSEIEANTGIKQPSISRILTGKNKdPRISTMVALEKLY 75
Cdd:smart00530  1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRK-PSLETLKKLAKAL 49
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 27-75 2.88e-05

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: 38.30  E-value: 2.88e-05
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*....
gi 449330912 27 IVQALLAQGLTQSEIEANTGIKQPSISRILTGKNKdPRISTMVALEKLY 75
Cdd:cd00093   4 LKELRKEKGLTQEELAEKLGVSRSTISRIENGKRN-PSLETLEKLAKAL 51
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 27-75 1.37e-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: 36.36  E-value: 1.37e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 449330912  27 IVQALLAQGLTQSEIEANTGIKQPSISRILTGKNKdPRISTMVALEKLY 75
Cdd:pfam01381  1 LKELREELGLSQEELAEKLGVSRSTISKIENGKRE-PSLETLKKLAEAL 48
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 26-74 1.89e-04

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: 36.92  E-value: 1.89e-04
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*....
gi 449330912 26 EIVQALLAQGLTQSEIEANTGIKQPSISRILTGKnKDPRISTMVALEKL 74
Cdd:COG3620  21 ALRLMRKELGLSQLPVAELVGVSQSDILRIESGK-RDPTVSTLEKIAEA 68
COG5606 COG5606
Predicted DNA-binding protein, XRE-type HTH domain [General function prediction only];
25-59 2.61e-04

Predicted DNA-binding protein, XRE-type HTH domain [General function prediction only];


Pssm-ID: 444337  Cd Length: 105  Bit Score: 36.78  E-value: 2.61e-04
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 449330912  25 IEIVQALLAQGLTQSEIEANTGIKQPSISRILTGK 59
Cdd:COG5606   35 AAIRKLIKERGLTQAEAAELLGITQPRVSDLLRGK 69
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
12-71 3.19e-04

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 36.13  E-value: 3.19e-04
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|
gi 449330912 12 MNNWRKTVYKKspieIVQALLAQGLTQSEIEANTGIKQPSISRILTGKNKdPRISTMVAL 71
Cdd:COG1396   1 MSTLKKALGER----LRELRKARGLTQEELAERLGVSRSTISRIERGRRN-PSLETLLKL 55
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 33-75 4.63e-04

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: 35.20  E-value: 4.63e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 449330912  33 AQGLTQSEIEANTGIKQPSISRILTGKNKDPRISTMVALEKLY 75
Cdd:pfam13560 12 RAGLSQEALARRLGVSRSTLSRLETGRRGRPSPAVVERLARAL 54
HTH_37 pfam13744
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain.
 26-74 1.75e-03

Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain.


Pssm-ID: 433449 [Multi-domain]  Cd Length: 80  Bit Score: 34.12  E-value: 1.75e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 449330912  26 EIVQALLAQGLTQSEIEANTGIKQPSISRILTGKNKDPRISTMV-ALEKL 74
Cdd:pfam13744 22 AIARLIEGRGLSQQEAAALLGIAQPKVSALLKGKLSRFSLDKLLdFLTAL 71
Trp_repressor pfam01371
Trp repressor protein; This protein binds to tryptophan and represses transcription of the Trp ...
 25-54 2.15e-03

Trp repressor protein; This protein binds to tryptophan and represses transcription of the Trp operon.


Pssm-ID: 426227  Cd Length: 86  Bit Score: 34.15  E-value: 2.15e-03
                         10        20        30
                 ....*....|....*....|....*....|
gi 449330912  25 IEIVQALLAQGLTQSEIEANTGIKQPSISR 54
Cdd:pfam01371 39 LQVAKMLLRGELTQREIAQELGASIATITR 68
ArsR COG0640
DNA-binding transcriptional regulator, ArsR family [Transcription];
25-54 2.44e-03

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


Pssm-ID: 440405 [Multi-domain]  Cd Length: 92  Bit Score: 34.09  E-value: 2.44e-03
                        10        20        30
                ....*....|....*....|....*....|
gi 449330912 25 IEIVQALLAQGLTQSEIEANTGIKQPSISR 54
Cdd:COG0640  23 LRILRLLAEGELCVGELAEALGLSQSTVSH 52
HTH_ARSR cd00090
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 25-56 9.14e-03

Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.


Pssm-ID: 238042 [Multi-domain]  Cd Length: 78  Bit Score: 32.27  E-value: 9.14e-03
                        10        20        30
                ....*....|....*....|....*....|..
gi 449330912 25 IEIVQALLAQGLTQSEIEANTGIKQPSISRIL 56
Cdd:cd00090  10 LRILRLLLEGPLTVSELAERLGLSQSTVSRHL 41
 
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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