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Conserved domains on  [gi|505806065|ref|WP_015703827|]
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MULTISPECIES: ImmA/IrrE family metallo-endopeptidase [Enterobacterales]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 11443576)

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

Gene Ontology:  GO:0003677
PubMed:  10473770|15808743|10556324

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
ImmA COG2856
Zn-dependent peptidase ImmA, M78 family [Posttranslational modification, protein turnover, ...
 195-290 1.17e-27

Zn-dependent peptidase ImmA, M78 family [Posttranslational modification, protein turnover, chaperones];


:

Pssm-ID: 442104  Cd Length: 105  Bit Score: 104.36  E-value: 1.17e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505806065 195 IFINKNQPMDRYRFTLAHELGHLVMHR--------APTPEMEEEANTFAAELLMPASDIYNDLRNVSIEKAAALKPFWRT 266
Cdd:COG2856    1 IVLNSNLSPERQRFTLAHELGHLLLHRggetdlflSSDDKIEREANAFAAELLMPEEALRELLKEKLSEDLEELAKRFGV 80

                         90       100
                 ....*....|....*....|....
gi 505806065 267 SMAALFYRAKTLKAITAGQSDWIW 290
Cdd:COG2856   81 SEEALLYRLKELGLIDEPGLGLIL 104
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
14-71 6.06e-13

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


:

Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 63.86  E-value: 6.06e-13
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 505806065  14 EMIELRRKMLGMSQKDLAQIIAISQGTLSKIEQGLKPATDEQIDSIAKALNCPIEFFM 71
Cdd:COG1396   10 ERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELL 67
 
Name Accession Description Interval E-value
ImmA COG2856
Zn-dependent peptidase ImmA, M78 family [Posttranslational modification, protein turnover, ...
 195-290 1.17e-27

Zn-dependent peptidase ImmA, M78 family [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 442104  Cd Length: 105  Bit Score: 104.36  E-value: 1.17e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505806065 195 IFINKNQPMDRYRFTLAHELGHLVMHR--------APTPEMEEEANTFAAELLMPASDIYNDLRNVSIEKAAALKPFWRT 266
Cdd:COG2856    1 IVLNSNLSPERQRFTLAHELGHLLLHRggetdlflSSDDKIEREANAFAAELLMPEEALRELLKEKLSEDLEELAKRFGV 80

                         90       100
                 ....*....|....*....|....
gi 505806065 267 SMAALFYRAKTLKAITAGQSDWIW 290
Cdd:COG2856   81 SEEALLYRLKELGLIDEPGLGLIL 104
Peptidase_M78 pfam06114
IrrE N-terminal-like domain; This entry includes the catalytic domain of the protein ImmA, ...
 165-276 7.20e-18

IrrE N-terminal-like domain; This entry includes the catalytic domain of the protein ImmA, which is a metallopeptidase containing an HEXXH zinc-binding motif from peptidase family M78. ImmA is encoded on a conjugative transposon. Conjugating bacteria are able to transfer conjugative transposons that can, for example, confer resistance to antibiotics. The transposon is integrated into the chromosome, but during conjugation excises itself and then moves to the recipient bacterium and re-integrate into its chromosome. Typically a conjugative tranposon encodes only the proteins required for this activity and the proteins that regulate it. During exponential growth, the ICEBs1 transposon of Bacillus subtilis is inactivated by the immunity repressor protein ImmR, which is encoded by the transposon and represses the genes for excision and transfer. Cleavage of ImmR relaxes repression and allows transfer of the transposon. ImmA has been shown to be essential for the cleavage of ImmR. This domain is also found in in metalloprotease IrrE, a central regulator of DNA damage repair in Deinococcaceae, HTH-type transcriptional regulators RamB and PrpC.


Pssm-ID: 399250  Cd Length: 122  Bit Score: 78.62  E-value: 7.20e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505806065  165 ERAGVIIIDCDMEDTSLSGLSYNLagLPPLIFINKNQPMDRYRFTLAHELGHLVMHRA-----------PTPEMEEEANT 233
Cdd:pfam06114   2 ERLGIRVFFLPLGAEDGDGRRFDR--HTPVIFLNENLSPTRQRFTLAHELGHLLLHEGgdtlsdqfdfkTAEAREREANI 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 505806065  234 FAAELLMPASDIYNDLRNVSIEKAAALKPFWRTSMAALFYRAK 276
Cdd:pfam06114  80 FAAALLMPYEAFLAAAETLRYDLELLLAERFGVSYEAVAHRLS 122
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
14-71 6.06e-13

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 63.86  E-value: 6.06e-13
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 505806065  14 EMIELRRKMLGMSQKDLAQIIAISQGTLSKIEQGLKPATDEQIDSIAKALNCPIEFFM 71
Cdd:COG1396   10 ERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELL 67
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
15-70 1.14e-11

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 59.07  E-value: 1.14e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 505806065    15 MIELRRKMLGMSQKDLAQIIAISQGTLSKIEQGLKPATDEQIDSIAKALNCPIEFF 70
Cdd:smart00530   1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 14-70 1.30e-11

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: 59.10  E-value: 1.30e-11
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 505806065  14 EMIELRRKMLGMSQKDLAQIIAISQGTLSKIEQGLKPATDEQIDSIAKALNCPIEFF 70
Cdd:cd00093    2 ERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 16-70 2.79e-10

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: 55.24  E-value: 2.79e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 505806065   16 IELRRKMLGMSQKDLAQIIAISQGTLSKIEQGLKPATDEQIDSIAKALNCPIEFF 70
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
couple_hipB TIGR03070
transcriptional regulator, y4mF family; Members of this family belong to a clade of ...
 19-64 6.10e-04

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: 37.64  E-value: 6.10e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 505806065   19 RRKMLGMSQKDLAQIIAISQGTLSKIEQGLKPATDEQIDSIAKALN 64
Cdd:TIGR03070  10 RRKALGLTQADLADLAGVGLRFIRDLENGKPTVRLDKVLRVLDALG 55
PRK09706 PRK09706
transcriptional repressor DicA; Reviewed
 14-65 8.96e-04

transcriptional repressor DicA; Reviewed


Pssm-ID: 182039 [Multi-domain]  Cd Length: 135  Bit Score: 39.07  E-value: 8.96e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 505806065  14 EMIELRRKMLGMSQKDLAQIIAISQGTLSKIEQGLKPATDEQIDSIAKALNC 65
Cdd:PRK09706   8 QRIRYRRKQLKLSQRSLAKAVKVSHVSISQWERDETEPTGKNLFALAKALQC 59
 
Name Accession Description Interval E-value
ImmA COG2856
Zn-dependent peptidase ImmA, M78 family [Posttranslational modification, protein turnover, ...
 195-290 1.17e-27

Zn-dependent peptidase ImmA, M78 family [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 442104  Cd Length: 105  Bit Score: 104.36  E-value: 1.17e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505806065 195 IFINKNQPMDRYRFTLAHELGHLVMHR--------APTPEMEEEANTFAAELLMPASDIYNDLRNVSIEKAAALKPFWRT 266
Cdd:COG2856    1 IVLNSNLSPERQRFTLAHELGHLLLHRggetdlflSSDDKIEREANAFAAELLMPEEALRELLKEKLSEDLEELAKRFGV 80

                         90       100
                 ....*....|....*....|....
gi 505806065 267 SMAALFYRAKTLKAITAGQSDWIW 290
Cdd:COG2856   81 SEEALLYRLKELGLIDEPGLGLIL 104
Peptidase_M78 pfam06114
IrrE N-terminal-like domain; This entry includes the catalytic domain of the protein ImmA, ...
 165-276 7.20e-18

IrrE N-terminal-like domain; This entry includes the catalytic domain of the protein ImmA, which is a metallopeptidase containing an HEXXH zinc-binding motif from peptidase family M78. ImmA is encoded on a conjugative transposon. Conjugating bacteria are able to transfer conjugative transposons that can, for example, confer resistance to antibiotics. The transposon is integrated into the chromosome, but during conjugation excises itself and then moves to the recipient bacterium and re-integrate into its chromosome. Typically a conjugative tranposon encodes only the proteins required for this activity and the proteins that regulate it. During exponential growth, the ICEBs1 transposon of Bacillus subtilis is inactivated by the immunity repressor protein ImmR, which is encoded by the transposon and represses the genes for excision and transfer. Cleavage of ImmR relaxes repression and allows transfer of the transposon. ImmA has been shown to be essential for the cleavage of ImmR. This domain is also found in in metalloprotease IrrE, a central regulator of DNA damage repair in Deinococcaceae, HTH-type transcriptional regulators RamB and PrpC.


Pssm-ID: 399250  Cd Length: 122  Bit Score: 78.62  E-value: 7.20e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505806065  165 ERAGVIIIDCDMEDTSLSGLSYNLagLPPLIFINKNQPMDRYRFTLAHELGHLVMHRA-----------PTPEMEEEANT 233
Cdd:pfam06114   2 ERLGIRVFFLPLGAEDGDGRRFDR--HTPVIFLNENLSPTRQRFTLAHELGHLLLHEGgdtlsdqfdfkTAEAREREANI 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 505806065  234 FAAELLMPASDIYNDLRNVSIEKAAALKPFWRTSMAALFYRAK 276
Cdd:pfam06114  80 FAAALLMPYEAFLAAAETLRYDLELLLAERFGVSYEAVAHRLS 122
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
14-71 6.06e-13

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 63.86  E-value: 6.06e-13
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 505806065  14 EMIELRRKMLGMSQKDLAQIIAISQGTLSKIEQGLKPATDEQIDSIAKALNCPIEFFM 71
Cdd:COG1396   10 ERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELL 67
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
15-70 1.14e-11

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 59.07  E-value: 1.14e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 505806065    15 MIELRRKMLGMSQKDLAQIIAISQGTLSKIEQGLKPATDEQIDSIAKALNCPIEFF 70
Cdd:smart00530   1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 14-70 1.30e-11

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: 59.10  E-value: 1.30e-11
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 505806065  14 EMIELRRKMLGMSQKDLAQIIAISQGTLSKIEQGLKPATDEQIDSIAKALNCPIEFF 70
Cdd:cd00093    2 ERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 16-70 2.79e-10

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: 55.24  E-value: 2.79e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 505806065   16 IELRRKMLGMSQKDLAQIIAISQGTLSKIEQGLKPATDEQIDSIAKALNCPIEFF 70
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
16-70 2.81e-10

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 55.62  E-value: 2.81e-10
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 505806065  16 IELRRKMLGMSQKDLAQIIAISQGTLSKIEQGLKPATDEQIDSIAKALNCPIEFF 70
Cdd:COG1476    9 LKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEEL 63
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 13-68 1.02e-09

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: 54.17  E-value: 1.02e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 505806065  13 PEMIELRRKMLGMSQKDLAQIIAISQGTLSKIEQGLKPATDEQIDSIAKALNCPIE 68
Cdd:COG1813   14 GERIREAREARGLSQEELAEKLGVSESTIRRIERGEATPSLDTLRKLEKALGISLA 69
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 2-78 3.99e-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: 53.49  E-value: 3.99e-09
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 505806065   2 VVEIKSAATIRpEMIELRRKMLGMSQKDLAQIIAISQGTLSKIEQGLKPATDEQIDSIAKALNCPIEFFMMSE--RLYG 78
Cdd:COG3620    9 VVTVSPDDTLG-EALRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLEKIAEALGKELSAVLVVDdgKLVG 86
HTH_26 pfam13443
Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to ...
 20-68 1.89e-05

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: 41.76  E-value: 1.89e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 505806065   20 RKML---GMSQKDLAQIIAISQGTLSKIEQGLKPA-TDEQIDSIAKALNCPIE 68
Cdd:pfam13443   3 RKLMadrGISKSDLARATGISRATLSRLRKGKPKRvSLDTLDKICDALGCQPG 55
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
7-47 4.29e-05

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


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 41.07  E-value: 4.29e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 505806065   7 SAATIRPEMIELRRKMLGMSQKDLAQIIAISQGTLSKIEQG 47
Cdd:COG2944    2 TKKPLTPEEIRALRERLGLSQAEFAALLGVSVSTVRRWEQG 42
YozG COG3655
DNA-binding transcriptional regulator, XRE family [Transcription];
15-68 5.47e-05

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


Pssm-ID: 442872 [Multi-domain]  Cd Length: 69  Bit Score: 40.90  E-value: 5.47e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 505806065  15 MIELR-RKML---GMSQKDLAQIIAISQGTLSKIEQG-LKPATDEQIDSIAKALNCPIE 68
Cdd:COG3655    1 MIYVKlDELLaerGMTKKELAEATGISRATLSRLKNGkAKAVRLDTLEKICKALDCQPG 59
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 14-74 6.27e-05

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: 40.35  E-value: 6.27e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 505806065   14 EMIELRRKMLGMSQKDLAQIIAISQGTLSKIEQGLKPATDEQIDSIAKALNCPIEFFMMSE 74
Cdd:pfam12844   2 ERLRKAREERGLTQEELAERLGISRSQLSAIENGKSVPPAETLYKIAELLGVPANWLLQGE 62
HigA COG5499
Antitoxin component HigA of the HigAB toxin-antitoxin module, contains an N-terminal HTH ...
 14-71 2.05e-04

Antitoxin component HigA of the HigAB toxin-antitoxin module, contains an N-terminal HTH domain [Defense mechanisms];


Pssm-ID: 444250  Cd Length: 127  Bit Score: 40.58  E-value: 2.05e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 505806065  14 EMIELRRKMLGMSQKDLAQIIAiSQGTLSKIEQGLKPATDEQIDSIAKALNCPIEFFM 71
Cdd:COG5499   68 EALKFLMEQHGLTQKDLAPEIG-SKSRVSEILNGKRSLTLEMIRKLAERFGIPAELFI 124
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 8-68 4.72e-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: 37.89  E-value: 4.72e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 505806065    8 AATIRpemiELRRKmLGMSQKDLAQIIAISQGTLSKIEQGLKP-ATDEQIDSIAKALNCPIE 68
Cdd:pfam13560   3 GARLR----RLRER-AGLSQEALARRLGVSRSTLSRLETGRRGrPSPAVVERLARALGVDGA 59
couple_hipB TIGR03070
transcriptional regulator, y4mF family; Members of this family belong to a clade of ...
 19-64 6.10e-04

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: 37.64  E-value: 6.10e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 505806065   19 RRKMLGMSQKDLAQIIAISQGTLSKIEQGLKPATDEQIDSIAKALN 64
Cdd:TIGR03070  10 RRKALGLTQADLADLAGVGLRFIRDLENGKPTVRLDKVLRVLDALG 55
VapI COG3093
Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense ...
 23-77 6.11e-04

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


Pssm-ID: 442327 [Multi-domain]  Cd Length: 87  Bit Score: 38.25  E-value: 6.11e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 505806065  23 LGMSQKDLAQIIAISQGTLSKIEQGLKPATDEQIDSIAKALNCPIEFFMMSERLY 77
Cdd:COG3093   21 LGLSQTELAKALGVSRQRISEILNGKRAITADTALRLARAFGTSAEFWLNLQAAY 75
PRK09706 PRK09706
transcriptional repressor DicA; Reviewed
 14-65 8.96e-04

transcriptional repressor DicA; Reviewed


Pssm-ID: 182039 [Multi-domain]  Cd Length: 135  Bit Score: 39.07  E-value: 8.96e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 505806065  14 EMIELRRKMLGMSQKDLAQIIAISQGTLSKIEQGLKPATDEQIDSIAKALNC 65
Cdd:PRK09706   8 QRIRYRRKQLKLSQRSLAKAVKVSHVSISQWERDETEPTGKNLFALAKALQC 59
CxxCG_CxxCG_HTH TIGR03830
putative zinc finger/helix-turn-helix protein, YgiT family; This model describes a family of ...
 6-47 3.10e-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: 37.23  E-value: 3.10e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 505806065    6 KSAATIRPEMIELRRKmLGMSQKDLAQIIAISQGTLSKIEQG 47
Cdd:TIGR03830  61 VDGLLTGPEIRRIRKK-LGLSQREAAELLGGGVNAFSRYERG 101
 
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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