NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|501073656|ref|WP_012124597|]
View 

MULTISPECIES: helix-turn-helix domain-containing protein [Cronobacter]

Protein Classification

HTH_XRE and Peptidase_S24_S26 domain-containing protein( domain architecture ID 10055448)

HTH_XRE and Peptidase_S24_S26 domain-containing protein

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-76 1.35e-11

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


:

Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 58.08  E-value: 1.35e-11
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 501073656   1 MKTTLSQRLEIAMTAGGFSQASLAEAAGVSQPTVWKIVSGRTQ-SSAKIVDLAKALGVRPEWLAHGVGSMKSEQVET 76
Cdd:COG1396    4 LKKALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNpSLETLLKLAKALGVSLDELLGGADEELPEALLS 80
LexA super family cl34386
SOS-response transcriptional repressor LexA (RecA-mediated autopeptidase) [Transcription, ...
 126-199 7.65e-05

SOS-response transcriptional repressor LexA (RecA-mediated autopeptidase) [Transcription, Signal transduction mechanisms];


The actual alignment was detected with superfamily member COG1974:

Pssm-ID: 441577 [Multi-domain]  Cd Length: 199  Bit Score: 41.82  E-value: 7.65e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 501073656 126 PELPQGCTIVVDSEETPVNNDFVYAKINGKSSAYRYLTRGPQNYLDVGDSRLGLVPID-ERVEILGVIVFMARSF 199
Cdd:COG1974  125 AGILDGDLVIVDRQLEAENGDIVVALIDGEATVKRLYKEGGRVRLQPENPAYPPIIIEgDDVEILGVVVGVIRRL 199
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-76 1.35e-11

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 58.08  E-value: 1.35e-11
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 501073656   1 MKTTLSQRLEIAMTAGGFSQASLAEAAGVSQPTVWKIVSGRTQ-SSAKIVDLAKALGVRPEWLAHGVGSMKSEQVET 76
Cdd:COG1396    4 LKKALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNpSLETLLKLAKALGVSLDELLGGADEELPEALLS 80
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 6-62 2.24e-09

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: 51.40  E-value: 2.24e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 501073656   6 SQRLEIAMTAGGFSQASLAEAAGVSQPTVWKIVSGRTQ-SSAKIVDLAKALGVRPEWL 62
Cdd:cd00093    1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNpSLETLEKLAKALGVSLDEL 58
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
8-62 9.79e-08

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 47.13  E-value: 9.79e-08
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 501073656     8 RLEIAMTAGGFSQASLAEAAGVSQPTVWKIVSGRTQ-SSAKIVDLAKALGVRPEWL 62
Cdd:smart00530   1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKpSLETLKKLAKALGVSLDEL 56
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 9-62 1.16e-07

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: 46.76  E-value: 1.16e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 501073656    9 LEIAMTAGGFSQASLAEAAGVSQPTVWKIVSGRTQSSAKIV-DLAKALGVRPEWL 62
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLkKLAEALGVSLDEL 55
PRK13355 PRK13355
bifunctional HTH-domain containing protein/aminotransferase; Provisional
 2-99 1.40e-06

bifunctional HTH-domain containing protein/aminotransferase; Provisional


Pssm-ID: 237361 [Multi-domain]  Cd Length: 517  Bit Score: 47.81  E-value: 1.40e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073656   2 KTTLSQRLEIAMTAGGFSQASLAEAA-------GVSQPTVWkiVSGRTQSSAKIVD-LAKALGVRPEWLAHGVGSMKSEQ 73
Cdd:PRK13355   1 KTTFAERLKQAMKARGLKQEDLVHAAeargvklGKSHISQY--VSGKTGPRRDVLPfLAAILGVSEDWLLGGESPADQES 78

                         90       100
                 ....*....|....*....|....*.
gi 501073656  74 vETSNASSIVYEGTIALPLYDESEKQ 99
Cdd:PRK13355  79 -DASAVVESAPNSHLADPSAPTTPIS 103
LexA COG1974
SOS-response transcriptional repressor LexA (RecA-mediated autopeptidase) [Transcription, ...
 126-199 7.65e-05

SOS-response transcriptional repressor LexA (RecA-mediated autopeptidase) [Transcription, Signal transduction mechanisms];


Pssm-ID: 441577 [Multi-domain]  Cd Length: 199  Bit Score: 41.82  E-value: 7.65e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 501073656 126 PELPQGCTIVVDSEETPVNNDFVYAKINGKSSAYRYLTRGPQNYLDVGDSRLGLVPID-ERVEILGVIVFMARSF 199
Cdd:COG1974  125 AGILDGDLVIVDRQLEAENGDIVVALIDGEATVKRLYKEGGRVRLQPENPAYPPIIIEgDDVEILGVVVGVIRRL 199
Peptidase_S24 pfam00717
Peptidase S24-like;
126-193 1.21e-04

Peptidase S24-like;


Pssm-ID: 425835  Cd Length: 116  Bit Score: 39.88  E-value: 1.21e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 501073656  126 PELPQGCTIVVDSEETPVNNDFVYAKINGKSSAYRYLTRGPQNYL-----DVGDSRlglVPIDERVEILGVIV 193
Cdd:pfam00717  47 PGIPDGDLVLVDPSREARNGDIVVARLDGEATVKRLYRDGGGIRLislnpEYPPIE---LPAEDDVEIIGRVV 116
antidote_HigA TIGR02607
addiction module antidote protein, HigA family; Members of this family form a distinct clade ...
 17-62 2.96e-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: 37.98  E-value: 2.96e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 501073656   17 GFSQASLAEAAGVSQPTVWKIVSGRTQSSAKI-VDLAKALGVRPE-WL 62
Cdd:TIGR02607  18 GLSVRALAKALGVSRSTLSRIVNGRAAITADMaLRLAKALGTSPEfWL 65
S24_LexA-like cd06529
Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of ...
 126-193 6.50e-03

Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the repressor of genes in the cellular SOS response to DNA damage; MucA and the related UmuD proteins, which are lesion-bypass DNA polymerases, induced in response to mitogenic DNA damage; RulA, a component of the rulAB locus that confers resistance to UV, and RuvA, which is a component of the RuvABC resolvasome that catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. The LexA-like proteins contain two-domains: an N-terminal DNA binding domain and a C-terminal domain (CTD) that provides LexA dimerization as well as cleavage activity. They undergo autolysis, cleaving at an Ala-Gly or a Cys-Gly bond, separating the DNA-binding domain from the rest of the protein. In the presence of single-stranded DNA, the LexA, UmuD and MucA proteins interact with RecA, activating self cleavage, thus either derepressing transcription in the case of LexA or activating the lesion-bypass polymerase in the case of UmuD and MucA. The LexA proteins are serine proteases that carry out catalysis using a serine/lysine dyad instead of the prototypical serine/histidine/aspartic acid triad found in most serine proteases. LexA sequence homologs are found in almost all of the bacterial genomes sequenced to date, covering a large number of phyla, suggesting both, an ancient origin and a widespread distribution of lexA and the SOS response.


Pssm-ID: 119397 [Multi-domain]  Cd Length: 81  Bit Score: 34.46  E-value: 6.50e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 501073656 126 PELPQGCTIVVDSEETPVNNDFVYAKINGKSSAYRYLTRgpqnyldvGDSRLGLVPI----------DERVEILGVIV 193
Cdd:cd06529   12 PTIPDGDLVLVDPSDTPRDGDIVVARLDGELTVKRLQRR--------GGGRLRLISDnpayppieidEEELEIVGVVG 81
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-76 1.35e-11

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 58.08  E-value: 1.35e-11
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 501073656   1 MKTTLSQRLEIAMTAGGFSQASLAEAAGVSQPTVWKIVSGRTQ-SSAKIVDLAKALGVRPEWLAHGVGSMKSEQVET 76
Cdd:COG1396    4 LKKALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNpSLETLLKLAKALGVSLDELLGGADEELPEALLS 80
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
1-62 1.55e-10

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 54.85  E-value: 1.55e-10
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 501073656   1 MKTTLSQRLEIAMTAGGFSQASLAEAAGVSQPTVWKIVSGRTQSSAKIV-DLAKALGVRPEWL 62
Cdd:COG1476    1 MKKKLGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELAlKIARALGVSLEEL 63
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 6-62 2.24e-09

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: 51.40  E-value: 2.24e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 501073656   6 SQRLEIAMTAGGFSQASLAEAAGVSQPTVWKIVSGRTQ-SSAKIVDLAKALGVRPEWL 62
Cdd:cd00093    1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNpSLETLEKLAKALGVSLDEL 58
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
8-62 9.79e-08

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 47.13  E-value: 9.79e-08
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 501073656     8 RLEIAMTAGGFSQASLAEAAGVSQPTVWKIVSGRTQ-SSAKIVDLAKALGVRPEWL 62
Cdd:smart00530   1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKpSLETLKKLAKALGVSLDEL 56
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 9-62 1.16e-07

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: 46.76  E-value: 1.16e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 501073656    9 LEIAMTAGGFSQASLAEAAGVSQPTVWKIVSGRTQSSAKIV-DLAKALGVRPEWL 62
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLkKLAEALGVSLDEL 55
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 5-64 6.46e-07

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: 44.83  E-value: 6.46e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 501073656    5 LSQRLEIAMTAGGFSQASLAEAAGVSQPTVWKIVSGRTQ--SSAKIVDLAKALGVRPEWLAH 64
Cdd:pfam13560   2 LGARLRRLRERAGLSQEALARRLGVSRSTLSRLETGRRGrpSPAVVERLARALGVDGAERAE 63
PRK13355 PRK13355
bifunctional HTH-domain containing protein/aminotransferase; Provisional
 2-99 1.40e-06

bifunctional HTH-domain containing protein/aminotransferase; Provisional


Pssm-ID: 237361 [Multi-domain]  Cd Length: 517  Bit Score: 47.81  E-value: 1.40e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073656   2 KTTLSQRLEIAMTAGGFSQASLAEAA-------GVSQPTVWkiVSGRTQSSAKIVD-LAKALGVRPEWLAHGVGSMKSEQ 73
Cdd:PRK13355   1 KTTFAERLKQAMKARGLKQEDLVHAAeargvklGKSHISQY--VSGKTGPRRDVLPfLAAILGVSEDWLLGGESPADQES 78

                         90       100
                 ....*....|....*....|....*.
gi 501073656  74 vETSNASSIVYEGTIALPLYDESEKQ 99
Cdd:PRK13355  79 -DASAVVESAPNSHLADPSAPTTPIS 103
PRK09706 PRK09706
transcriptional repressor DicA; Reviewed
 1-65 1.00e-05

transcriptional repressor DicA; Reviewed


Pssm-ID: 182039 [Multi-domain]  Cd Length: 135  Bit Score: 43.30  E-value: 1.00e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 501073656   1 MKT-TLSQRLEIAMTAGGFSQASLAEAAGVSQPTVWKIVSGRTQSSAK-IVDLAKALGVRPEWLAHG 65
Cdd:PRK09706   1 MKNlTLGQRIRYRRKQLKLSQRSLAKAVKVSHVSISQWERDETEPTGKnLFALAKALQCSPTWLLFG 67
VapI COG3093
Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense ...
 9-63 2.01e-05

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


Pssm-ID: 442327 [Multi-domain]  Cd Length: 87  Bit Score: 41.33  E-value: 2.01e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 501073656   9 LEIAMTAGGFSQASLAEAAGVSQPTVWKIVSGRTQSSAKI-VDLAKALGVRPE-WLA 63
Cdd:COG3093   14 REEFLEPLGLSQTELAKALGVSRQRISEILNGKRAITADTaLRLARAFGTSAEfWLN 70
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 3-62 2.09e-05

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: 41.54  E-value: 2.09e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 501073656   3 TTLSQRLEIAMTAGGFSQASLAEAAGVSQPTVWKIVSGRTQSS-AKIVDLAKALGVRPEWL 62
Cdd:COG3620   16 DTLGEALRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTvSTLEKIAEALGKELSAV 76
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 3-61 6.68e-05

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: 39.54  E-value: 6.68e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 501073656   3 TTLSQRLEIAMTAGGFSQASLAEAAGVSQPTVWKIVSGRTQ-SSAKIVDLAKALGVRPEW 61
Cdd:COG1813   11 EDYGERIREAREARGLSQEELAEKLGVSESTIRRIERGEATpSLDTLRKLEKALGISLAE 70
LexA COG1974
SOS-response transcriptional repressor LexA (RecA-mediated autopeptidase) [Transcription, ...
 126-199 7.65e-05

SOS-response transcriptional repressor LexA (RecA-mediated autopeptidase) [Transcription, Signal transduction mechanisms];


Pssm-ID: 441577 [Multi-domain]  Cd Length: 199  Bit Score: 41.82  E-value: 7.65e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 501073656 126 PELPQGCTIVVDSEETPVNNDFVYAKINGKSSAYRYLTRGPQNYLDVGDSRLGLVPID-ERVEILGVIVFMARSF 199
Cdd:COG1974  125 AGILDGDLVIVDRQLEAENGDIVVALIDGEATVKRLYKEGGRVRLQPENPAYPPIIIEgDDVEILGVVVGVIRRL 199
YdaS_antitoxin pfam15943
Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT; YdaS_antitoxin is a family ...
 19-62 7.70e-05

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: 39.25  E-value: 7.70e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 501073656   19 SQASLAEAAGVSQPTVWKIVSGRTQSSAKIV-DLAKALG--VRPEWL 62
Cdd:pfam15943  10 GQKALAEALGVTQQAVSQWLHGKKGIPAEYCpAIERATSgkVTREEL 56
YdaS COG4197
DNA-binding transcriptional regulator YdaS, prophage-encoded, Cro superfamily [Transcription];
19-60 1.15e-04

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


Pssm-ID: 443351  Cd Length: 68  Bit Score: 39.12  E-value: 1.15e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 501073656  19 SQASLAEAAGVSQPTVWKIVSGRTQSSAKIV-DLAKALG--VRPE 60
Cdd:COG4197   10 SQSALARALGVSQQAVSQWLNGKRRVPAERClAIERATGgaVTRE 54
Peptidase_S24 pfam00717
Peptidase S24-like;
126-193 1.21e-04

Peptidase S24-like;


Pssm-ID: 425835  Cd Length: 116  Bit Score: 39.88  E-value: 1.21e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 501073656  126 PELPQGCTIVVDSEETPVNNDFVYAKINGKSSAYRYLTRGPQNYL-----DVGDSRlglVPIDERVEILGVIV 193
Cdd:pfam00717  47 PGIPDGDLVLVDPSREARNGDIVVARLDGEATVKRLYRDGGGIRLislnpEYPPIE---LPAEDDVEIIGRVV 116
antidote_HigA TIGR02607
addiction module antidote protein, HigA family; Members of this family form a distinct clade ...
 17-62 2.96e-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: 37.98  E-value: 2.96e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 501073656   17 GFSQASLAEAAGVSQPTVWKIVSGRTQSSAKI-VDLAKALGVRPE-WL 62
Cdd:TIGR02607  18 GLSVRALAKALGVSRSTLSRIVNGRAAITADMaLRLAKALGTSPEfWL 65
YozG COG3655
DNA-binding transcriptional regulator, XRE family [Transcription];
8-62 1.30e-03

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


Pssm-ID: 442872 [Multi-domain]  Cd Length: 69  Bit Score: 35.89  E-value: 1.30e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 501073656   8 RLEIAMTAGGFSQASLAEAAGVSQPTVWKIVSGRTQS-SAKIVD-LAKALGVRPEWL 62
Cdd:COG3655    5 KLDELLAERGMTKKELAEATGISRATLSRLKNGKAKAvRLDTLEkICKALDCQPGDL 61
HTH_26 pfam13443
Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to ...
 8-60 2.43e-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: 35.21  E-value: 2.43e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 501073656    8 RLEIAMTAGGFSQASLAEAAGVSQPTVWKIVSGRTQ--SSAKIVDLAKALGVRPE 60
Cdd:pfam13443   1 KLRKLMADRGISKSDLARATGISRATLSRLRKGKPKrvSLDTLDKICDALGCQPG 55
S24_LexA-like cd06529
Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of ...
 126-193 6.50e-03

Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the repressor of genes in the cellular SOS response to DNA damage; MucA and the related UmuD proteins, which are lesion-bypass DNA polymerases, induced in response to mitogenic DNA damage; RulA, a component of the rulAB locus that confers resistance to UV, and RuvA, which is a component of the RuvABC resolvasome that catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. The LexA-like proteins contain two-domains: an N-terminal DNA binding domain and a C-terminal domain (CTD) that provides LexA dimerization as well as cleavage activity. They undergo autolysis, cleaving at an Ala-Gly or a Cys-Gly bond, separating the DNA-binding domain from the rest of the protein. In the presence of single-stranded DNA, the LexA, UmuD and MucA proteins interact with RecA, activating self cleavage, thus either derepressing transcription in the case of LexA or activating the lesion-bypass polymerase in the case of UmuD and MucA. The LexA proteins are serine proteases that carry out catalysis using a serine/lysine dyad instead of the prototypical serine/histidine/aspartic acid triad found in most serine proteases. LexA sequence homologs are found in almost all of the bacterial genomes sequenced to date, covering a large number of phyla, suggesting both, an ancient origin and a widespread distribution of lexA and the SOS response.


Pssm-ID: 119397 [Multi-domain]  Cd Length: 81  Bit Score: 34.46  E-value: 6.50e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 501073656 126 PELPQGCTIVVDSEETPVNNDFVYAKINGKSSAYRYLTRgpqnyldvGDSRLGLVPI----------DERVEILGVIV 193
Cdd:cd06529   12 PTIPDGDLVLVDPSDTPRDGDIVVARLDGELTVKRLQRR--------GGGRLRLISDnpayppieidEEELEIVGVVG 81
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH