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Conserved domains on  [gi|1476636162|gb|AXZ47769|]
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helix-turn-helix domain-containing protein [Citrobacter freundii]

Protein Classification

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];
2-70 1.51e-18

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


:

Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 73.88  E-value: 1.51e-18
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1476636162   2 NINTAIAARLKQLREQKNMSQSKLAELCGWAQSRIGNYEAGRRNVGVDDAITISKALGISPAELMFGDD 70
Cdd:COG1396     3 TLKKALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGAD 71
PRK05572 super family cl32080
RNA polymerase sporulation sigma factor, SigF/SigG family;
54-111 7.95e-03

RNA polymerase sporulation sigma factor, SigF/SigG family;


The actual alignment was detected with superfamily member PRK05572:

Pssm-ID: 180137 [Multi-domain]  Cd Length: 252  Bit Score: 34.56  E-value: 7.95e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1476636162  54 ISKALGISPAELMFGDDHAESwLTPKHRKL-------ITLFDQLPESEQDRMIDTFQLR--LKEIDE 111
Cdd:PRK05572  140 LAEYLGVTPEEVVLAQEASRS-PQSIHETVhendgdpITLLDQIADQSEEDWFDKIALKeaIRELDE 205
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
2-70 1.51e-18

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 73.88  E-value: 1.51e-18
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1476636162   2 NINTAIAARLKQLREQKNMSQSKLAELCGWAQSRIGNYEAGRRNVGVDDAITISKALGISPAELMFGDD 70
Cdd:COG1396     3 TLKKALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGAD 71
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
10-65 3.53e-16

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 67.16  E-value: 3.53e-16
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1476636162   10 RLKQLREQKNMSQSKLAELCGWAQSRIGNYEAGRRNVGVDDAITISKALGISPAEL 65
Cdd:smart00530   1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 8-65 3.62e-16

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: 67.19  E-value: 3.62e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1476636162   8 AARLKQLREQKNMSQSKLAELCGWAQSRIGNYEAGRRNVGVDDAITISKALGISPAEL 65
Cdd:cd00093     1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
PRK09706 PRK09706
transcriptional repressor DicA; Reviewed
 4-124 6.13e-15

transcriptional repressor DicA; Reviewed


Pssm-ID: 182039 [Multi-domain]  Cd Length: 135  Bit Score: 66.03  E-value: 6.13e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1476636162   4 NTAIAARLKQLREQKNMSQSKLAELCGWAQSRIGNYEAGRRNVGVDDAITISKALGISPAELMFGD----------DHAE 73
Cdd:PRK09706    3 NLTLGQRIRYRRKQLKLSQRSLAKAVKVSHVSISQWERDETEPTGKNLFALAKALQCSPTWLLFGDedkqptppvpLNQP 82

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1476636162  74 SWLTPKHRKLITLFDQLPESEQDRMIDTFQLRLKEIDEYVEKYLRGRLKPT 124
Cdd:PRK09706   83 VELSEDQKELLELFDALPESEQDAQLSEMRARVENFNKLFEELLKARKRSA 133
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 11-65 1.07e-13

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: 60.63  E-value: 1.07e-13
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1476636162  11 LKQLREQKNMSQSKLAELCGWAQSRIGNYEAGRRNVGVDDAITISKALGISPAEL 65
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
antidote_HigA TIGR02607
addiction module antidote protein, HigA family; Members of this family form a distinct clade ...
 19-76 2.70e-04

addiction module antidote protein, HigA family; Members of this family form a distinct clade within the larger family HTH_3 of helix-turn-helix proteins, described by pfam01381. Members of this clade are strictly bacterial and nearly always shorter than 110 amino acids. This family includes the characterized member HigA, without which the killer protein HigB cannot be cloned. The hig (host inhibition of growth) system is noted to be unusual in that killer protein is uncoded by the upstream member of the gene pair. [Regulatory functions, DNA interactions, Regulatory functions, Protein interactions, Mobile and extrachromosomal element functions, Other]


Pssm-ID: 274228 [Multi-domain]  Cd Length: 78  Bit Score: 36.83  E-value: 2.70e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1476636162  19 NMSQSKLAELCGWAQSRIGNYEAGRRNVGVDDAITISKALGISPaelmfgddhaESWL 76
Cdd:TIGR02607  18 GLSVRALAKALGVSRSTLSRIVNGRAAITADMALRLAKALGTSP----------EFWL 65
PRK05572 PRK05572
RNA polymerase sporulation sigma factor, SigF/SigG family;
54-111 7.95e-03

RNA polymerase sporulation sigma factor, SigF/SigG family;


Pssm-ID: 180137 [Multi-domain]  Cd Length: 252  Bit Score: 34.56  E-value: 7.95e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1476636162  54 ISKALGISPAELMFGDDHAESwLTPKHRKL-------ITLFDQLPESEQDRMIDTFQLR--LKEIDE 111
Cdd:PRK05572  140 LAEYLGVTPEEVVLAQEASRS-PQSIHETVhendgdpITLLDQIADQSEEDWFDKIALKeaIRELDE 205
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
2-70 1.51e-18

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 73.88  E-value: 1.51e-18
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1476636162   2 NINTAIAARLKQLREQKNMSQSKLAELCGWAQSRIGNYEAGRRNVGVDDAITISKALGISPAELMFGDD 70
Cdd:COG1396     3 TLKKALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGAD 71
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
10-65 3.53e-16

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 67.16  E-value: 3.53e-16
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1476636162   10 RLKQLREQKNMSQSKLAELCGWAQSRIGNYEAGRRNVGVDDAITISKALGISPAEL 65
Cdd:smart00530   1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 8-65 3.62e-16

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: 67.19  E-value: 3.62e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1476636162   8 AARLKQLREQKNMSQSKLAELCGWAQSRIGNYEAGRRNVGVDDAITISKALGISPAEL 65
Cdd:cd00093     1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
4-70 1.05e-15

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 66.41  E-value: 1.05e-15
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1476636162   4 NTAIAARLKQLREQKNMSQSKLAELCGWAQSRIGNYEAGRRNVGVDDAITISKALGISPAELMFGDD 70
Cdd:COG1476     2 KKKLGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEELFSLEE 68
PRK09706 PRK09706
transcriptional repressor DicA; Reviewed
 4-124 6.13e-15

transcriptional repressor DicA; Reviewed


Pssm-ID: 182039 [Multi-domain]  Cd Length: 135  Bit Score: 66.03  E-value: 6.13e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1476636162   4 NTAIAARLKQLREQKNMSQSKLAELCGWAQSRIGNYEAGRRNVGVDDAITISKALGISPAELMFGD----------DHAE 73
Cdd:PRK09706    3 NLTLGQRIRYRRKQLKLSQRSLAKAVKVSHVSISQWERDETEPTGKNLFALAKALQCSPTWLLFGDedkqptppvpLNQP 82

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1476636162  74 SWLTPKHRKLITLFDQLPESEQDRMIDTFQLRLKEIDEYVEKYLRGRLKPT 124
Cdd:PRK09706   83 VELSEDQKELLELFDALPESEQDAQLSEMRARVENFNKLFEELLKARKRSA 133
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 11-65 1.07e-13

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: 60.63  E-value: 1.07e-13
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1476636162  11 LKQLREQKNMSQSKLAELCGWAQSRIGNYEAGRRNVGVDDAITISKALGISPAEL 65
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 7-64 2.78e-11

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: 54.94  E-value: 2.78e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1476636162   7 IAARLKQLREQKNMSQSKLAELCGWAQSRIGNYEAGRRNVGVDDAITISKALGISPAE 64
Cdd:COG1813    13 YGERIREAREARGLSQEELAEKLGVSESTIRRIERGEATPSLDTLRKLEKALGISLAE 70
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 6-65 2.83e-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: 52.15  E-value: 2.83e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1476636162   6 AIAARLKQLREQKNMSQSKLAELCGWAQSRIGNYEAGRRN-VGVDDAITISKALGISPAEL 65
Cdd:pfam13560   1 ELGARLRRLRERAGLSQEALARRLGVSRSTLSRLETGRRGrPSPAVVERLARALGVDGAER 61
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 4-70 2.09e-09

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: 50.79  E-value: 2.09e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1476636162   4 NTAIAARLKQLREQKNMSQSKLAELCGWAQSRIGNYEAGRRNVGVDDAITISKALGISPAELMFGDD 70
Cdd:COG3620    15 DDTLGEALRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLEKIAEALGKELSAVLVVDD 81
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 10-66 4.42e-08

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: 46.51  E-value: 4.42e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1476636162  10 RLKQLREQKNMSQSKLAELCGWAQSRIGNYEAGRRNVGVDDAITISKALGISPAELM 66
Cdd:pfam12844   3 RLRKAREERGLTQEELAERLGISRSQLSAIENGKSVPPAETLYKIAELLGVPANWLL 59
VapI COG3093
Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense ...
 16-66 5.12e-08

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


Pssm-ID: 442327 [Multi-domain]  Cd Length: 87  Bit Score: 47.11  E-value: 5.12e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1476636162  16 EQKNMSQSKLAELCGWAQSRIGNYEAGRRNVGVDDAITISKALGISPAELM 66
Cdd:COG3093    19 EPLGLSQTELAKALGVSRQRISEILNGKRAITADTALRLARAFGTSAEFWL 69
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
1-44 7.11e-07

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


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 43.38  E-value: 7.11e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1476636162   1 MNINTAIAARLKQLREQKNMSQSKLAELCGWAQSRIGNYEAGRR 44
Cdd:COG2944     1 MTKKPLTPEEIRALRERLGLSQAEFAALLGVSVSTVRRWEQGRR 44
PRK08154 PRK08154
anaerobic benzoate catabolism transcriptional regulator; Reviewed
 5-97 1.35e-05

anaerobic benzoate catabolism transcriptional regulator; Reviewed


Pssm-ID: 236167 [Multi-domain]  Cd Length: 309  Bit Score: 42.63  E-value: 1.35e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1476636162   5 TAIAARLKQLREQKNMSQSKLAELCGWAQSRIGNYEAGRRNVGVDDAITISKALGISPAELMFGDDHAeswlTPKHRKLI 84
Cdd:PRK08154   27 AALGERVRTLRARRGMSRKVLAQASGVSERYLAQLESGQGNVSILLLRRVARALGCSLADLLGDVDTS----SPDWLLIR 102

                          90
                  ....*....|...
gi 1476636162  85 TLFDQLPESEQDR 97
Cdd:PRK08154  103 ELLEQASPAQLAR 115
RodZ COG1426
Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell ...
 7-66 3.60e-05

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: 39.02  E-value: 3.60e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1476636162   7 IAARLKQLREQKNMSQSKLAELCGWAQSRIGNYEAGRRNVGVDDAIT------ISKALGISPAELM 66
Cdd:COG1426     6 IGELLRQAREAKGLSLEDVAERTKISVSYLEAIEEGDFDALPGPVYVrgflrsYARALGLDPEELL 71
YozG COG3655
DNA-binding transcriptional regulator, XRE family [Transcription];
6-66 1.79e-04

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


Pssm-ID: 442872 [Multi-domain]  Cd Length: 69  Bit Score: 37.04  E-value: 1.79e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1476636162   6 AIAARLKQLREQKNMSQSKLAELCGWAQSRIGNYEAGR-RNVGVDDAITISKALGISPAELM 66
Cdd:COG3655     1 MIYVKLDELLAERGMTKKELAEATGISRATLSRLKNGKaKAVRLDTLEKICKALDCQPGDLL 62
antidote_HigA TIGR02607
addiction module antidote protein, HigA family; Members of this family form a distinct clade ...
 19-76 2.70e-04

addiction module antidote protein, HigA family; Members of this family form a distinct clade within the larger family HTH_3 of helix-turn-helix proteins, described by pfam01381. Members of this clade are strictly bacterial and nearly always shorter than 110 amino acids. This family includes the characterized member HigA, without which the killer protein HigB cannot be cloned. The hig (host inhibition of growth) system is noted to be unusual in that killer protein is uncoded by the upstream member of the gene pair. [Regulatory functions, DNA interactions, Regulatory functions, Protein interactions, Mobile and extrachromosomal element functions, Other]


Pssm-ID: 274228 [Multi-domain]  Cd Length: 78  Bit Score: 36.83  E-value: 2.70e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1476636162  19 NMSQSKLAELCGWAQSRIGNYEAGRRNVGVDDAITISKALGISPaelmfgddhaESWL 76
Cdd:TIGR02607  18 GLSVRALAKALGVSRSTLSRIVNGRAAITADMALRLAKALGTSP----------EFWL 65
PRK13355 PRK13355
bifunctional HTH-domain containing protein/aminotransferase; Provisional
 4-74 3.20e-04

bifunctional HTH-domain containing protein/aminotransferase; Provisional


Pssm-ID: 237361 [Multi-domain]  Cd Length: 517  Bit Score: 38.95  E-value: 3.20e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1476636162   4 NTAIAARLKQLREQKNMSQSKLAELCGWA-----QSRIGNYEAGRRNVGVDDAITISKALGISPAELMFGDDHAES 74
Cdd:PRK13355    1 KTTFAERLKQAMKARGLKQEDLVHAAEARgvklgKSHISQYVSGKTGPRRDVLPFLAAILGVSEDWLLGGESPADQ 76
YdaS_antitoxin pfam15943
Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT; YdaS_antitoxin is a family ...
 21-65 4.88e-04

Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT; YdaS_antitoxin is a family of putative bacterial antitoxins, neutralising the toxin YdaT, family pfam06254.


Pssm-ID: 435033  Cd Length: 65  Bit Score: 36.17  E-value: 4.88e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1476636162  21 SQSKLAELCGWAQSRIGNYEAGRRNVGVDDAITISKALG--ISPAEL 65
Cdd:pfam15943  10 GQKALAEALGVTQQAVSQWLHGKKGIPAEYCPAIERATSgkVTREEL 56
HTH_26 pfam13443
Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to ...
 10-66 4.96e-04

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: 35.98  E-value: 4.96e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1476636162  10 RLKQLREQKNMSQSKLAELCGWAQSRIGNYEAGR-RNVGVDDAITISKALGISPAELM 66
Cdd:pfam13443   1 KLRKLMADRGISKSDLARATGISRATLSRLRKGKpKRVSLDTLDKICDALGCQPGDLL 58
YdaS COG4197
DNA-binding transcriptional regulator YdaS, prophage-encoded, Cro superfamily [Transcription];
21-65 2.01e-03

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


Pssm-ID: 443351  Cd Length: 68  Bit Score: 34.50  E-value: 2.01e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1476636162  21 SQSKLAELCGWAQSRIGNYEAGRRNVGVDDAITISKALG--ISPAEL 65
Cdd:COG4197    10 SQSALARALGVSQQAVSQWLNGKRRVPAERCLAIERATGgaVTREEL 56
PRK09943 PRK09943
HTH-type transcriptional regulator PuuR;
2-64 4.20e-03

HTH-type transcriptional regulator PuuR;


Pssm-ID: 182158 [Multi-domain]  Cd Length: 185  Bit Score: 35.15  E-value: 4.20e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1476636162   2 NINTAIAARLKQLREQKNMSQSKLAELCGWAQSRIGNYEAGRRNVGVDDAITISKALGISPAE 64
Cdd:PRK09943    3 DEGLAPGKRLSEIRQQQGLSQRRAAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSLSE 65
HTH_37 pfam13744
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain.
 1-43 4.43e-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: 33.74  E-value: 4.43e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 1476636162   1 MNINTAIAARLKQLREQKNMSQSKLAELCGWAQSRIGNYEAGR 43
Cdd:pfam13744  13 LQAKAQLARAIARLIEGRGLSQQEAAALLGIAQPKVSALLKGK 55
PRK05572 PRK05572
RNA polymerase sporulation sigma factor, SigF/SigG family;
54-111 7.95e-03

RNA polymerase sporulation sigma factor, SigF/SigG family;


Pssm-ID: 180137 [Multi-domain]  Cd Length: 252  Bit Score: 34.56  E-value: 7.95e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1476636162  54 ISKALGISPAELMFGDDHAESwLTPKHRKL-------ITLFDQLPESEQDRMIDTFQLR--LKEIDE 111
Cdd:PRK05572  140 LAEYLGVTPEEVVLAQEASRS-PQSIHETVhendgdpITLLDQIADQSEEDWFDKIALKeaIRELDE 205
PRK09726 PRK09726
type II toxin-antitoxin system antitoxin HipB;
5-61 8.38e-03

type II toxin-antitoxin system antitoxin HipB;


Pssm-ID: 182049  Cd Length: 88  Bit Score: 33.42  E-value: 8.38e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1476636162   5 TAIAARLKQLREQKNMSQSKLAELCGWAQSRIGNYEAGRRNVGVDDAITISKALGIS 61
Cdd:PRK09726   11 TQLANAMKLVRQQNGWTQSELAKKIGIKQATISNFENNPDNTTLTTFFKILQSLELS 67
 
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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