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Conserved domains on  [gi|446499822|ref|WP_000577676|]
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MULTISPECIES: helix-turn-helix domain-containing protein [Bacillus]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 11443570)

helix-turn-helix domain-containing protein such as an XRE (Xenobiotic Response Element) family transcriptional regulator

Gene Ontology:  GO:0003677
PubMed:  37972151

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-78 3.62e-24

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


:

Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 89.29  E-value: 3.62e-24
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 446499822   1 MIFSERLKREREKRNWSQHDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRSDEELTQKVINDSKQ 78
Cdd:COG1396    6 KALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGADEELPEALLSEEE 83
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-78 3.62e-24

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 89.29  E-value: 3.62e-24
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 446499822   1 MIFSERLKREREKRNWSQHDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRSDEELTQKVINDSKQ 78
Cdd:COG1396    6 KALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGADEELPEALLSEEE 83
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 4-61 2.16e-19

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: 76.05  E-value: 2.16e-19
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 446499822   4 SERLKREREKRNWSQHDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDEL 61
Cdd:cd00093    1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
6-61 5.50e-18

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 72.55  E-value: 5.50e-18
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 446499822     6 RLKREREKRNWSQHDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDEL 61
Cdd:smart00530   1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 7-61 4.22e-16

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: 67.57  E-value: 4.22e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 446499822    7 LKREREKRNWSQHDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDEL 61
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
PRK04140 PRK04140
transcriptional regulator;
2-87 6.34e-13

transcriptional regulator;


Pssm-ID: 235224 [Multi-domain]  Cd Length: 317  Bit Score: 64.11  E-value: 6.34e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446499822   2 IFSERLKREREKRNWSQHDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDE---LLRSDEEltQKVINDSKQ 78
Cdd:PRK04140 126 IDGDVLREAREELGLSLGELASELGVSRRTISKYENGGMNASIEVAIKLEEILDVPLTKpidILEKVRD--DEVTPEDPE 203


                 ....*....
gi 446499822  79 LAYPKWKVF 87
Cdd:PRK04140 204 EDPFEKEIL 212
couple_hipB TIGR03070
transcriptional regulator, y4mF family; Members of this family belong to a clade of ...
 7-58 2.06e-07

transcriptional regulator, y4mF family; Members of this family belong to a clade of helix-turn-helix DNA-binding proteins, among the larger family pfam01381 (HTH_3; Helix-turn-helix). Members are similar in sequence to the HipB protein of E. coli. Genes for members of the seed alignment for this protein family were found to be closely linked to genes encoding proteins related to HipA. The HibBA operon appears to have some features in common with toxin-antitoxin post-segregational killing systems. [Regulatory functions, DNA interactions]


Pssm-ID: 213767 [Multi-domain]  Cd Length: 58  Bit Score: 45.34  E-value: 2.06e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 446499822    7 LKREREKRNWSQHDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITI 58
Cdd:TIGR03070   7 VRARRKALGLTQADLADLAGVGLRFIRDLENGKPTVRLDKVLRVLDALGLEL 58
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-78 3.62e-24

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 89.29  E-value: 3.62e-24
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 446499822   1 MIFSERLKREREKRNWSQHDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRSDEELTQKVINDSKQ 78
Cdd:COG1396    6 KALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGADEELPEALLSEEE 83
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
1-66 1.21e-22

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 84.90  E-value: 1.21e-22
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 446499822   1 MIFSERLKREREKRNWSQHDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRSDE 66
Cdd:COG1476    3 KKLGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEELFSLEE 68
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 4-61 2.16e-19

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: 76.05  E-value: 2.16e-19
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 446499822   4 SERLKREREKRNWSQHDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDEL 61
Cdd:cd00093    1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 3-60 2.78e-18

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: 73.82  E-value: 2.78e-18
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 446499822   3 FSERLKREREKRNWSQHDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDE 60
Cdd:COG1813   13 YGERIREAREARGLSQEELAEKLGVSESTIRRIERGEATPSLDTLRKLEKALGISLAE 70
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
6-61 5.50e-18

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 72.55  E-value: 5.50e-18
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 446499822     6 RLKREREKRNWSQHDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDEL 61
Cdd:smart00530   1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 7-61 4.22e-16

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: 67.57  E-value: 4.22e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 446499822    7 LKREREKRNWSQHDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDEL 61
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
COG1395 COG1395
Predicted transcriptional regulator [Transcription];
2-82 1.60e-13

Predicted transcriptional regulator [Transcription];


Pssm-ID: 441005 [Multi-domain]  Cd Length: 313  Bit Score: 66.01  E-value: 1.60e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446499822   2 IFSERLKREREKRNWSQHDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFG--IT--IDeLLRSDEELTQKVINDSK 77
Cdd:COG1395  127 IDGEKLRELREERGLSLGELASELGVSRRTISKYERGEMDASIEVALKLEEILGepIVkpID-ILEGAEDLEEAEPTPED 205


                 ....*
gi 446499822  78 QLAYP 82
Cdd:COG1395  206 PEEEE 210
PRK04140 PRK04140
transcriptional regulator;
2-87 6.34e-13

transcriptional regulator;


Pssm-ID: 235224 [Multi-domain]  Cd Length: 317  Bit Score: 64.11  E-value: 6.34e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446499822   2 IFSERLKREREKRNWSQHDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDE---LLRSDEEltQKVINDSKQ 78
Cdd:PRK04140 126 IDGDVLREAREELGLSLGELASELGVSRRTISKYENGGMNASIEVAIKLEEILDVPLTKpidILEKVRD--DEVTPEDPE 203


                 ....*....
gi 446499822  79 LAYPKWKVF 87
Cdd:PRK04140 204 EDPFEKEIL 212
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 5-62 2.39e-12

Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. This family contains many example antitoxins from bacterial toxin-antitoxin systems. These antitoxins are likely to be DNA-binding domains.


Pssm-ID: 463728 [Multi-domain]  Cd Length: 64  Bit Score: 58.07  E-value: 2.39e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 446499822    5 ERLKREREKRNWSQHDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELL 62
Cdd:pfam12844   2 ERLRKAREERGLTQEELAERLGISRSQLSAIENGKSVPPAETLYKIAELLGVPANWLL 59
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 3-61 2.93e-10

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: 52.92  E-value: 2.93e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 446499822    3 FSERLKREREKRNWSQHDLAEKIHVSRQSVSKWETGKNY-PSIEIIIHLSDLFGITIDEL 61
Cdd:pfam13560   2 LGARLRRLRERAGLSQEALARRLGVSRSTLSRLETGRRGrPSPAVVERLARALGVDGAER 61
VapI COG3093
Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense ...
 5-63 1.06e-08

Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense mechanisms];


Pssm-ID: 442327 [Multi-domain]  Cd Length: 87  Bit Score: 49.42  E-value: 1.06e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 446499822   5 ERLKRER-EKRNWSQHDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLR 63
Cdd:COG3093   11 EILREEFlEPLGLSQTELAKALGVSRQRISEILNGKRAITADTALRLARAFGTSAEFWLN 70
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
5-43 1.13e-08

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


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 48.78  E-value: 1.13e-08
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 446499822   5 ERLKREREKRNWSQHDLAEKIHVSRQSVSKWETGKNYPS 43
Cdd:COG2944    9 EEIRALRERLGLSQAEFAALLGVSVSTVRRWEQGRRKPS 47
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 1-67 1.99e-08

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: 48.86  E-value: 1.99e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 446499822   1 MIFSERLKREREKRNWSQHDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRSDEE 67
Cdd:COG3620   16 DTLGEALRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLEKIAEALGKELSAVLVVDDG 82
PRK13355 PRK13355
bifunctional HTH-domain containing protein/aminotransferase; Provisional
 3-83 2.66e-08

bifunctional HTH-domain containing protein/aminotransferase; Provisional


Pssm-ID: 237361 [Multi-domain]  Cd Length: 517  Bit Score: 51.28  E-value: 2.66e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446499822   3 FSERLKREREKRNWSQHDLAEK-----IHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRSDEELTQKVINDSK 77
Cdd:PRK13355   4 FAERLKQAMKARGLKQEDLVHAaeargVKLGKSHISQYVSGKTGPRRDVLPFLAAILGVSEDWLLGGESPADQESDASAV 83


                 ....*.
gi 446499822  78 QLAYPK 83
Cdd:PRK13355  84 VESAPN 89
PHA01976 PHA01976
helix-turn-helix protein
 1-61 2.67e-08

helix-turn-helix protein


Pssm-ID: 177330 [Multi-domain]  Cd Length: 67  Bit Score: 48.03  E-value: 2.67e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446499822   1 MIFSERLKREREKRNWSQHDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDEL 61
Cdd:PHA01976   1 MSFAIQLIKARNARAWSAPELSRRAGVRHSLIYDFEADKRLPNLKTLLRLADALGVTLDWL 61
couple_hipB TIGR03070
transcriptional regulator, y4mF family; Members of this family belong to a clade of ...
 7-58 2.06e-07

transcriptional regulator, y4mF family; Members of this family belong to a clade of helix-turn-helix DNA-binding proteins, among the larger family pfam01381 (HTH_3; Helix-turn-helix). Members are similar in sequence to the HipB protein of E. coli. Genes for members of the seed alignment for this protein family were found to be closely linked to genes encoding proteins related to HipA. The HibBA operon appears to have some features in common with toxin-antitoxin post-segregational killing systems. [Regulatory functions, DNA interactions]


Pssm-ID: 213767 [Multi-domain]  Cd Length: 58  Bit Score: 45.34  E-value: 2.06e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 446499822    7 LKREREKRNWSQHDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITI 58
Cdd:TIGR03070   7 VRARRKALGLTQADLADLAGVGLRFIRDLENGKPTVRLDKVLRVLDALGLEL 58
TIGR00270 TIGR00270
TIGR00270 family protein; [Hypothetical proteins, Conserved]
 3-60 4.71e-07

TIGR00270 family protein; [Hypothetical proteins, Conserved]


Pssm-ID: 129371 [Multi-domain]  Cd Length: 154  Bit Score: 46.44  E-value: 4.71e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 446499822    3 FSERLKREREKRNWSQHDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDE 60
Cdd:TIGR00270  70 YGIIIRREREKRGWSQEQLAKKIQEKESLIKKIENAEIEPEPKVVEKLEKLLKIKLRE 127
YozG COG3655
DNA-binding transcriptional regulator, XRE family [Transcription];
6-67 9.41e-07

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


Pssm-ID: 442872 [Multi-domain]  Cd Length: 69  Bit Score: 43.59  E-value: 9.41e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 446499822   6 RLKREREKRNWSQHDLAEKIHVSRQSVSKWETGKN-YPSIEIIIHLSDLFGITIDELLRSDEE 67
Cdd:COG3655    5 KLDELLAERGMTKKELAEATGISRATLSRLKNGKAkAVRLDTLEKICKALDCQPGDLLEYVPD 67
HTH_26 pfam13443
Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to ...
 6-62 2.84e-06

Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to DNA.


Pssm-ID: 433211 [Multi-domain]  Cd Length: 63  Bit Score: 42.53  E-value: 2.84e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 446499822    6 RLKREREKRNWSQHDLAEKIHVSRQSVSKWETGK-NYPSIEIIIHLSDLFGITIDELL 62
Cdd:pfam13443   1 KLRKLMADRGISKSDLARATGISRATLSRLRKGKpKRVSLDTLDKICDALGCQPGDLL 58
RodZ COG1426
Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell ...
 3-62 4.59e-06

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: 42.10  E-value: 4.59e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 446499822   3 FSERLKREREKRNWSQHDLAEKIHVSRQSVSKWETGK------NYPSIEIIIHLSDLFGITIDELL 62
Cdd:COG1426    6 IGELLRQAREAKGLSLEDVAERTKISVSYLEAIEEGDfdalpgPVYVRGFLRSYARALGLDPEELL 71
PRK09706 PRK09706
transcriptional repressor DicA; Reviewed
 3-67 3.04e-05

transcriptional repressor DicA; Reviewed


Pssm-ID: 182039 [Multi-domain]  Cd Length: 135  Bit Score: 41.38  E-value: 3.04e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 446499822   3 FSERLKREREKRNWSQHDLAEKIHVSRQSVSKWETGKNYPSIEIIIHLSDLFGITIDELLRSDEE 67
Cdd:PRK09706   6 LGQRIRYRRKQLKLSQRSLAKAVKVSHVSISQWERDETEPTGKNLFALAKALQCSPTWLLFGDED 70
CxxCG_CxxCG_HTH TIGR03830
putative zinc finger/helix-turn-helix protein, YgiT family; This model describes a family of ...
 7-54 1.29e-03

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: 36.45  E-value: 1.29e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 446499822    7 LKREREKRNWSQHDLAEKIHVSRQSVSKWETGKNYPSieiiIHLSDLF 54
Cdd:TIGR03830  70 IRRIRKKLGLSQREAAELLGGGVNAFSRYERGEVRPS----KALDKLL 113
Phage_CI_repr pfam07022
Bacteriophage CI repressor helix-turn-helix domain; This family consists of several phage CI ...
 17-68 2.37e-03

Bacteriophage CI repressor helix-turn-helix domain; This family consists of several phage CI repressor proteins and related bacterial sequences. The CI repressor is known to function as a transcriptional switch, determining whether transcription is lytic or lysogenic.


Pssm-ID: 311152  Cd Length: 65  Bit Score: 34.61  E-value: 2.37e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 446499822   17 SQHDLAEKIHVSRQSVSKWETgKNYPSIEIIIHLSDLFGITIDELLRSDEEL 68
Cdd:pfam07022  14 SRQELADHLGVSKSTLSTWYT-RDSFPAELVVRCALETGVSLEWLATGDGEL 64
YdaS COG4197
DNA-binding transcriptional regulator YdaS, prophage-encoded, Cro superfamily [Transcription];
17-50 7.05e-03

DNA-binding transcriptional regulator YdaS, prophage-encoded, Cro superfamily [Transcription];


Pssm-ID: 443351  Cd Length: 68  Bit Score: 33.35  E-value: 7.05e-03
                         10        20        30
                 ....*....|....*....|....*....|....
gi 446499822  17 SQHDLAEKIHVSRQSVSKWETGKNYPSIEIIIHL 50
Cdd:COG4197   10 SQSALARALGVSQQAVSQWLNGKRRVPAERCLAI 43
 
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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