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Conserved domains on  [gi|492802800|ref|WP_005968406|]
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MULTISPECIES: short-chain fatty acyl-CoA regulator family protein [Brucella]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 11467355)

helix-turn-helix (HTH) domain-containing protein with an XRE (Xenobiotic Response Element) family HTH domain, binds DNA and may function as a transcriptional regulator; similar to Cereibacter sphaeroides propionyl-CoA carboxylase regulator

CATH:  1.10.260.40
Gene Ontology:  GO:0003677
PubMed:  10473770|8831795|15808743|2644244
SCOP:  4000362

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
COG3800 COG3800
Predicted transcriptional regulator [General function prediction only];
20-468 0e+00

Predicted transcriptional regulator [General function prediction only];


:

Pssm-ID: 443013 [Multi-domain]  Cd Length: 447  Bit Score: 531.05  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492802800  20 RATQSGFAERLGISTSYLNQIENNQRPVSAAVLLALAENYQIDIGAISLGDDDRLLSAVSEALADPVFDNYKPSLQEMKL 99
Cdd:COG3800    2 QLLAKLLGLSLSYLNLIENLKKNPRALLLLLLAELLLVDYDDLVSLLLDLLLALLALLLDSLLLDELPLELFGLLLALLA 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492802800 100 ITQNAPGLAHALIACHQAYRRNSEQLasldnqlGRAPSTAEPAPYEEVRDFFHFIDNYVHELDIAAEKLAADLDIPGRDI 179
Cdd:COG3800   82 AAAAAAPAALAAALRAAAERAAAYAL-------GREGASAEPFPLEEVRDFFEAHDNYFPELDEAAEALAAELGLDPGDL 154

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492802800 180 GVALPQYMEDRH--RVRIARAGAEEAVLRRFDAHTRVLYLNPYSPATTRNFQIAFQIAELEMESLVTAIARQADFRSAEA 257
Cdd:COG3800  155 YAALAERLRERHgiTVRILPLEALGGLLRRYDPHRRTLLLSERLDPAQRAFQLAHQLALLEQGDLIDALLASAGFSSEEA 234

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492802800 258 VEICKIGLRNYFAGALVLPYQTFLAAAKELRHDLELLASRFGASLEQVAHRLSTLQRSGQRGVPVFFARVDRAGNITKRH 337
Cdd:COG3800  235 RRLARIGLANYFAGALLMPYGRFLRAAEALRYDIELLARRFGVSFEQVCHRLTTLQRPGARGVPFFFLRVDRAGNISKRF 314

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492802800 338 SAAKLQFARYGAACPLWNVHQAFETPGRIIRQLAETPDGARYLCIATELTKSEGGFKAPQRRYAIALGCEVAYAQDFVYA 417
Cdd:COG3800  315 SATGFHFARFGGACPLWNVHEAFETPGRILTQLAEMPDGRRYLCIARTVSRPGGGYGAPGRRFAIGLGCEIRHAGRLVYA 394

                        410       420       430       440       450
                 ....*....|....*....|....*....|....*....|....*....|.
gi 492802800 418 DGLDITMRSAFDPIGVSCRICERAECVQRAIPPLNSRLAVDHDRRGILPYR 468
Cdd:COG3800  395 DGLDLDDPAAATPIGVGCRLCERPDCPQRAFPPLGRRLKVDENRRGVSPYR 445
 
Name Accession Description Interval E-value
COG3800 COG3800
Predicted transcriptional regulator [General function prediction only];
20-468 0e+00

Predicted transcriptional regulator [General function prediction only];


Pssm-ID: 443013 [Multi-domain]  Cd Length: 447  Bit Score: 531.05  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492802800  20 RATQSGFAERLGISTSYLNQIENNQRPVSAAVLLALAENYQIDIGAISLGDDDRLLSAVSEALADPVFDNYKPSLQEMKL 99
Cdd:COG3800    2 QLLAKLLGLSLSYLNLIENLKKNPRALLLLLLAELLLVDYDDLVSLLLDLLLALLALLLDSLLLDELPLELFGLLLALLA 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492802800 100 ITQNAPGLAHALIACHQAYRRNSEQLasldnqlGRAPSTAEPAPYEEVRDFFHFIDNYVHELDIAAEKLAADLDIPGRDI 179
Cdd:COG3800   82 AAAAAAPAALAAALRAAAERAAAYAL-------GREGASAEPFPLEEVRDFFEAHDNYFPELDEAAEALAAELGLDPGDL 154

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492802800 180 GVALPQYMEDRH--RVRIARAGAEEAVLRRFDAHTRVLYLNPYSPATTRNFQIAFQIAELEMESLVTAIARQADFRSAEA 257
Cdd:COG3800  155 YAALAERLRERHgiTVRILPLEALGGLLRRYDPHRRTLLLSERLDPAQRAFQLAHQLALLEQGDLIDALLASAGFSSEEA 234

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492802800 258 VEICKIGLRNYFAGALVLPYQTFLAAAKELRHDLELLASRFGASLEQVAHRLSTLQRSGQRGVPVFFARVDRAGNITKRH 337
Cdd:COG3800  235 RRLARIGLANYFAGALLMPYGRFLRAAEALRYDIELLARRFGVSFEQVCHRLTTLQRPGARGVPFFFLRVDRAGNISKRF 314

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492802800 338 SAAKLQFARYGAACPLWNVHQAFETPGRIIRQLAETPDGARYLCIATELTKSEGGFKAPQRRYAIALGCEVAYAQDFVYA 417
Cdd:COG3800  315 SATGFHFARFGGACPLWNVHEAFETPGRILTQLAEMPDGRRYLCIARTVSRPGGGYGAPGRRFAIGLGCEIRHAGRLVYA 394

                        410       420       430       440       450
                 ....*....|....*....|....*....|....*....|....*....|.
gi 492802800 418 DGLDITMRSAFDPIGVSCRICERAECVQRAIPPLNSRLAVDHDRRGILPYR 468
Cdd:COG3800  395 DGLDLDDPAAATPIGVGCRLCERPDCPQRAFPPLGRRLKVDENRRGVSPYR 445
ScfRs pfam09856
Short-chain fatty acyl coenzyme A regulators; This family includes short-chain fatty acid ...
 311-467 1.20e-95

Short-chain fatty acyl coenzyme A regulators; This family includes short-chain fatty acid regulators such as RAMB (regulator of acetate metabolism B), PCCR (Propionyl-CoA carboxylase regulator), PrpR (Propionate regulator). RamB is a negative transcriptional regulator of genes involved in acetate metabolism of C. glutamicum. It is responsible for expression control of the AK, PTA, ICL, and MS genes and, thus, for the proper adaptation to acetate as carbon and energy source. Nucleotide sequence analysis indicate the RamB protein consists of 469 aa with a putative HTH motif at the N terminus. PCCR prevents the accumulation of propionyl-CoA by controlling expression of the gene encoding propionyl-CoA carboxylase, which is responsible for propionyl-CoA consumption by Rhodobacter sphaeroides. Many other Proteobacteria and Actinomycetales contain one or several PccR homologs that group into distinct clades on the basis of the pathway of acyl-CoA metabolism that they control. PrpR is a transcriptional activator controlling prpDBC2 operon which encodes enzymes 2-methylcitrate dehydratase (PrpD2), 2-methylisocitrate lyase (PrpB2) and 2-methylcitrate synthase (PrpC2). They are essential for growth with propionate as carbon source. The regulatory protein belongs to the HTH_XRE regulator family. It has a length of 441 amino acids and an N-terminal lamda repressor-like DNA-binding domain.


Pssm-ID: 430882 [Multi-domain]  Cd Length: 157  Bit Score: 285.18  E-value: 1.20e-95
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492802800  311 TLQRSGQRGVPVFFARVDRAGNITKRHSAAKLQFARYGAACPLWNVHQAFETPGRIIRQLAETPDGARYLCIATELTKSE 390
Cdd:pfam09856   1 TLQRPGARGVPFFFVRVDRAGNISKRFSATGFPFARFGGACPLWNVHEAFATPGRILTQLAEMPDGRRYLTIARTVTRPG 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 492802800  391 GGFKAPQRRYAIALGCEVAYAQDFVYADGLDITMRSAFDPIGVSCRICERAECVQRAIPPLNSRLAVDHDRRGILPY 467
Cdd:pfam09856  81 GGFGAPPRRFAIGLGCEAEHAARLVYADGLDLDDPAAATPIGVGCRLCERPDCPQRAFPPLGRPLRVDENRRGVSPY 157
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 9-66 3.44e-12

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: 61.03  E-value: 3.44e-12
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 492802800   9 GRKIREIREQHRATQSGFAERLGISTSYLNQIENNQRPVSAAVLLALAENYQIDIGAI 66
Cdd:cd00093    1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
11-63 1.49e-10

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 56.37  E-value: 1.49e-10
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|...
gi 492802800    11 KIREIREQHRATQSGFAERLGISTSYLNQIENNQRPVSAAVLLALAENYQIDI 63
Cdd:smart00530   1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSL 53
PRK09706 PRK09706
transcriptional repressor DicA; Reviewed
 4-73 4.96e-03

transcriptional repressor DicA; Reviewed


Pssm-ID: 182039 [Multi-domain]  Cd Length: 135  Bit Score: 37.14  E-value: 4.96e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492802800   4 RKLYIGRKIREIREQHRATQSGFAERLGISTSYLNQIENNQRPVSAAVLLALAENYQIDIGAISLGDDDR 73
Cdd:PRK09706   2 KNLTLGQRIRYRRKQLKLSQRSLAKAVKVSHVSISQWERDETEPTGKNLFALAKALQCSPTWLLFGDEDK 71
 
Name Accession Description Interval E-value
COG3800 COG3800
Predicted transcriptional regulator [General function prediction only];
20-468 0e+00

Predicted transcriptional regulator [General function prediction only];


Pssm-ID: 443013 [Multi-domain]  Cd Length: 447  Bit Score: 531.05  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492802800  20 RATQSGFAERLGISTSYLNQIENNQRPVSAAVLLALAENYQIDIGAISLGDDDRLLSAVSEALADPVFDNYKPSLQEMKL 99
Cdd:COG3800    2 QLLAKLLGLSLSYLNLIENLKKNPRALLLLLLAELLLVDYDDLVSLLLDLLLALLALLLDSLLLDELPLELFGLLLALLA 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492802800 100 ITQNAPGLAHALIACHQAYRRNSEQLasldnqlGRAPSTAEPAPYEEVRDFFHFIDNYVHELDIAAEKLAADLDIPGRDI 179
Cdd:COG3800   82 AAAAAAPAALAAALRAAAERAAAYAL-------GREGASAEPFPLEEVRDFFEAHDNYFPELDEAAEALAAELGLDPGDL 154

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492802800 180 GVALPQYMEDRH--RVRIARAGAEEAVLRRFDAHTRVLYLNPYSPATTRNFQIAFQIAELEMESLVTAIARQADFRSAEA 257
Cdd:COG3800  155 YAALAERLRERHgiTVRILPLEALGGLLRRYDPHRRTLLLSERLDPAQRAFQLAHQLALLEQGDLIDALLASAGFSSEEA 234

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492802800 258 VEICKIGLRNYFAGALVLPYQTFLAAAKELRHDLELLASRFGASLEQVAHRLSTLQRSGQRGVPVFFARVDRAGNITKRH 337
Cdd:COG3800  235 RRLARIGLANYFAGALLMPYGRFLRAAEALRYDIELLARRFGVSFEQVCHRLTTLQRPGARGVPFFFLRVDRAGNISKRF 314

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492802800 338 SAAKLQFARYGAACPLWNVHQAFETPGRIIRQLAETPDGARYLCIATELTKSEGGFKAPQRRYAIALGCEVAYAQDFVYA 417
Cdd:COG3800  315 SATGFHFARFGGACPLWNVHEAFETPGRILTQLAEMPDGRRYLCIARTVSRPGGGYGAPGRRFAIGLGCEIRHAGRLVYA 394

                        410       420       430       440       450
                 ....*....|....*....|....*....|....*....|....*....|.
gi 492802800 418 DGLDITMRSAFDPIGVSCRICERAECVQRAIPPLNSRLAVDHDRRGILPYR 468
Cdd:COG3800  395 DGLDLDDPAAATPIGVGCRLCERPDCPQRAFPPLGRRLKVDENRRGVSPYR 445
ScfRs pfam09856
Short-chain fatty acyl coenzyme A regulators; This family includes short-chain fatty acid ...
 311-467 1.20e-95

Short-chain fatty acyl coenzyme A regulators; This family includes short-chain fatty acid regulators such as RAMB (regulator of acetate metabolism B), PCCR (Propionyl-CoA carboxylase regulator), PrpR (Propionate regulator). RamB is a negative transcriptional regulator of genes involved in acetate metabolism of C. glutamicum. It is responsible for expression control of the AK, PTA, ICL, and MS genes and, thus, for the proper adaptation to acetate as carbon and energy source. Nucleotide sequence analysis indicate the RamB protein consists of 469 aa with a putative HTH motif at the N terminus. PCCR prevents the accumulation of propionyl-CoA by controlling expression of the gene encoding propionyl-CoA carboxylase, which is responsible for propionyl-CoA consumption by Rhodobacter sphaeroides. Many other Proteobacteria and Actinomycetales contain one or several PccR homologs that group into distinct clades on the basis of the pathway of acyl-CoA metabolism that they control. PrpR is a transcriptional activator controlling prpDBC2 operon which encodes enzymes 2-methylcitrate dehydratase (PrpD2), 2-methylisocitrate lyase (PrpB2) and 2-methylcitrate synthase (PrpC2). They are essential for growth with propionate as carbon source. The regulatory protein belongs to the HTH_XRE regulator family. It has a length of 441 amino acids and an N-terminal lamda repressor-like DNA-binding domain.


Pssm-ID: 430882 [Multi-domain]  Cd Length: 157  Bit Score: 285.18  E-value: 1.20e-95
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492802800  311 TLQRSGQRGVPVFFARVDRAGNITKRHSAAKLQFARYGAACPLWNVHQAFETPGRIIRQLAETPDGARYLCIATELTKSE 390
Cdd:pfam09856   1 TLQRPGARGVPFFFVRVDRAGNISKRFSATGFPFARFGGACPLWNVHEAFATPGRILTQLAEMPDGRRYLTIARTVTRPG 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 492802800  391 GGFKAPQRRYAIALGCEVAYAQDFVYADGLDITMRSAFDPIGVSCRICERAECVQRAIPPLNSRLAVDHDRRGILPY 467
Cdd:pfam09856  81 GGFGAPPRRFAIGLGCEAEHAARLVYADGLDLDDPAAATPIGVGCRLCERPDCPQRAFPPLGRPLRVDENRRGVSPY 157
Peptidase_M78 pfam06114
IrrE N-terminal-like domain; This entry includes the catalytic domain of the protein ImmA, ...
 192-310 5.98e-26

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: 102.11  E-value: 5.98e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492802800  192 RVRIARAGAEEAVLRRFDAHTRVLYLNPYSPATTRNFQIAFQIAELEMESLVTAIARQADFRSAEAVEICkiglRNYFAG 271
Cdd:pfam06114   7 RVFFLPLGAEDGDGRRFDRHTPVIFLNENLSPTRQRFTLAHELGHLLLHEGGDTLSDQFDFKTAEARERE----ANIFAA 82

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 492802800  272 ALVLPYQTFLAAAKELRHDLEL-LASRFGASLEQVAHRLS 310
Cdd:pfam06114  83 ALLMPYEAFLAAAETLRYDLELlLAERFGVSYEAVAHRLS 122
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-81 8.88e-16

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 72.34  E-value: 8.88e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492802800   1 MTPRKLYIGRKIREIREQHRATQSGFAERLGISTSYLNQIENNQRPVSAAVLLALAENYQIDIGAISLGDDDRLLSAVSE 80
Cdd:COG1396    1 MSTLKKALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGADEELPEALLS 80


                 .
gi 492802800  81 A 81
Cdd:COG1396   81 E 81
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 9-66 3.44e-12

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: 61.03  E-value: 3.44e-12
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 492802800   9 GRKIREIREQHRATQSGFAERLGISTSYLNQIENNQRPVSAAVLLALAENYQIDIGAI 66
Cdd:cd00093    1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
11-63 1.49e-10

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 56.37  E-value: 1.49e-10
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|...
gi 492802800    11 KIREIREQHRATQSGFAERLGISTSYLNQIENNQRPVSAAVLLALAENYQIDI 63
Cdd:smart00530   1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSL 53
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
8-66 3.15e-10

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 56.01  E-value: 3.15e-10
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 492802800   8 IGRKIREIREQHRATQSGFAERLGISTSYLNQIENNQRPVSAAVLLALAENYQIDIGAI 66
Cdd:COG1476    5 LGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEEL 63
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 12-63 1.47e-09

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: 53.70  E-value: 1.47e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 492802800   12 IREIREQHRATQSGFAERLGISTSYLNQIENNQRPVSAAVLLALAENYQIDI 63
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSL 52
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 9-66 1.04e-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: 51.52  E-value: 1.04e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 492802800    9 GRKIREIREQHRATQSGFAERLGISTSYLNQIENNQRPVSAAVLLALAENYQIDIGAI 66
Cdd:pfam12844   1 GERLRKAREERGLTQEELAERLGISRSQLSAIENGKSVPPAETLYKIAELLGVPANWL 58
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 8-81 2.41e-07

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: 48.48  E-value: 2.41e-07
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 492802800   8 IGRKIREIREQHRATQSGFAERLGISTSYLNQIENNQRPVSAAVLLALAENYQIDIGAISLGDDDRLLSAVSEA 81
Cdd:COG3620   18 LGEALRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLEKIAEALGKELSAVLVVDDGKLVGIITRR 91
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 8-63 6.56e-07

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: 46.47  E-value: 6.56e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 492802800   8 IGRKIREIREQHRATQSGFAERLGISTSYLNQIENNQRPVSAAVLLALAENYQIDI 63
Cdd:COG1813   13 YGERIREAREARGLSQEELAEKLGVSESTIRRIERGEATPSLDTLRKLEKALGISL 68
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
1-56 2.97e-06

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


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 44.54  E-value: 2.97e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 492802800   1 MTPRKLyIGRKIREIREQHRATQSGFAERLGISTSYLNQIENNQRPVSAAVLLALA 56
Cdd:COG2944    1 MTKKPL-TPEEIRALRERLGLSQAEFAALLGVSVSTVRRWEQGRRKPSGAALKLLR 55
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 8-62 2.07e-05

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: 42.13  E-value: 2.07e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 492802800    8 IGRKIREIREQHRATQSGFAERLGISTSYLNQIENNQRP-VSAAVLLALAENYQID 62
Cdd:pfam13560   2 LGARLRRLRERAGLSQEALARRLGVSRSTLSRLETGRRGrPSPAVVERLARALGVD 57
VapI COG3093
Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense ...
 13-57 8.74e-05

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


Pssm-ID: 442327 [Multi-domain]  Cd Length: 87  Bit Score: 40.95  E-value: 8.74e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 492802800  13 REIREQHRATQSGFAERLGISTSYLNQIENNQRPVSAAVLLALAE 57
Cdd:COG3093   15 EEFLEPLGLSQTELAKALGVSRQRISEILNGKRAITADTALRLAR 59
RodZ COG1426
Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell ...
 8-45 4.05e-04

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: 38.63  E-value: 4.05e-04
                         10        20        30
                 ....*....|....*....|....*....|....*...
gi 492802800   8 IGRKIREIREQHRATQSGFAERLGISTSYLNQIENNQR 45
Cdd:COG1426    6 IGELLRQAREAKGLSLEDVAERTKISVSYLEAIEEGDF 43
PRK09706 PRK09706
transcriptional repressor DicA; Reviewed
 4-73 4.96e-03

transcriptional repressor DicA; Reviewed


Pssm-ID: 182039 [Multi-domain]  Cd Length: 135  Bit Score: 37.14  E-value: 4.96e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492802800   4 RKLYIGRKIREIREQHRATQSGFAERLGISTSYLNQIENNQRPVSAAVLLALAENYQIDIGAISLGDDDR 73
Cdd:PRK09706   2 KNLTLGQRIRYRRKQLKLSQRSLAKAVKVSHVSISQWERDETEPTGKNLFALAKALQCSPTWLLFGDEDK 71
HTH_26 pfam13443
Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to ...
 11-64 9.26e-03

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: 34.82  E-value: 9.26e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 492802800   11 KIREIREQHRATQSGFAERLGISTSYLNQIENNQ-RPVSAAVLLALAENYQIDIG 64
Cdd:pfam13443   1 KLRKLMADRGISKSDLARATGISRATLSRLRKGKpKRVSLDTLDKICDALGCQPG 55
 
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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