NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1191156999|gb|OTC04089|]
View 

transcriptional regulator [Escherichia coli]

Protein Classification

type II toxin-antitoxin system HigA family antitoxin( domain architecture ID 10009358)

type II toxin-antitoxin system HigA family antitoxin similar to Escherichia coli HigA, the antitoxin component of the HigB-HigA TA system; binds to HigB to inhibit its mRNA interferase activity

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
HigA COG5499
Antitoxin component HigA of the HigAB toxin-antitoxin module, contains an N-terminal HTH ...
 12-138 3.17e-42

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: 136.11  E-value: 3.17e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191156999  12 EKLTAVAPFLAGIQNEEQYAQALELVDHLL----LNDPENPLLDLVCAKITAWEESAPEFAEfnamaqamPGGIAVIRTL 87
Cdd:COG5499     2 TATFNAAPPLKPIRTEADYEAALALIEELLdadeLGTPEGDLLDLLATLIEAYEAKHYPIPP--------PDPIEALKFL 73

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1191156999  88 MDQYGLTLSDL-PEIGSKSMVSRVLSGKRKLTLEHAKKLATRFGISPALFID 138
Cdd:COG5499    74 MEQHGLTQKDLaPEIGSKSRVSEILNGKRSLTLEMIRKLAERFGIPAELFIQ 125
 
Name Accession Description Interval E-value
HigA COG5499
Antitoxin component HigA of the HigAB toxin-antitoxin module, contains an N-terminal HTH ...
 12-138 3.17e-42

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: 136.11  E-value: 3.17e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191156999  12 EKLTAVAPFLAGIQNEEQYAQALELVDHLL----LNDPENPLLDLVCAKITAWEESAPEFAEfnamaqamPGGIAVIRTL 87
Cdd:COG5499     2 TATFNAAPPLKPIRTEADYEAALALIEELLdadeLGTPEGDLLDLLATLIEAYEAKHYPIPP--------PDPIEALKFL 73

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1191156999  88 MDQYGLTLSDL-PEIGSKSMVSRVLSGKRKLTLEHAKKLATRFGISPALFID 138
Cdd:COG5499    74 MEQHGLTQKDLaPEIGSKSRVSEILNGKRSLTLEMIRKLAERFGIPAELFIQ 125
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
84-136 3.31e-08

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 47.13  E-value: 3.31e-08
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1191156999   84 IRTLMDQYGLTLSDLPE-IG-SKSMVSRVLSGKRKLTLEHAKKLATRFGISPALF 136
Cdd:smart00530   2 LKELREEKGLTQEELAEkLGvSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 84-136 1.08e-06

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: 42.93  E-value: 1.08e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1191156999  84 IRTLMDQYGLTLSDLPE-IG-SKSMVSRVLSGKRKLTLEHAKKLATRFGISPALF 136
Cdd:cd00093     4 LKELRKEKGLTQEELAEkLGvSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 84-136 2.35e-06

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: 42.14  E-value: 2.35e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1191156999  84 IRTLMDQYGLTLSDLPE-IG-SKSMVSRVLSGKRKLTLEHAKKLATRFGISPALF 136
Cdd:pfam01381   1 LKELREELGLSQEELAEkLGvSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
antidote_HigA TIGR02607
addiction module antidote protein, HigA family; Members of this family form a distinct clade ...
 78-133 4.98e-03

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: 33.74  E-value: 4.98e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1191156999  78 PGGIaVIRTLMDQYGLTLSDLPE-IG-SKSMVSRVLSGKRKLTLEHAKKLATRFGISP 133
Cdd:TIGR02607   5 PGEI-LLEEFLEPLGLSVRALAKaLGvSRSTLSRIVNGRAAITADMALRLAKALGTSP 61
 
Name Accession Description Interval E-value
HigA COG5499
Antitoxin component HigA of the HigAB toxin-antitoxin module, contains an N-terminal HTH ...
 12-138 3.17e-42

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: 136.11  E-value: 3.17e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191156999  12 EKLTAVAPFLAGIQNEEQYAQALELVDHLL----LNDPENPLLDLVCAKITAWEESAPEFAEfnamaqamPGGIAVIRTL 87
Cdd:COG5499     2 TATFNAAPPLKPIRTEADYEAALALIEELLdadeLGTPEGDLLDLLATLIEAYEAKHYPIPP--------PDPIEALKFL 73

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1191156999  88 MDQYGLTLSDL-PEIGSKSMVSRVLSGKRKLTLEHAKKLATRFGISPALFID 138
Cdd:COG5499    74 MEQHGLTQKDLaPEIGSKSRVSEILNGKRSLTLEMIRKLAERFGIPAELFIQ 125
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
84-136 3.31e-08

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 47.13  E-value: 3.31e-08
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1191156999   84 IRTLMDQYGLTLSDLPE-IG-SKSMVSRVLSGKRKLTLEHAKKLATRFGISPALF 136
Cdd:smart00530   2 LKELREEKGLTQEELAEkLGvSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
73-138 6.53e-07

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 44.22  E-value: 6.53e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1191156999  73 MAQAMPGGIAVIRTLMDQYGLTLSDLPE-IG-SKSMVSRVLSGKRKLTLEHAKKLATRFGISPALFID 138
Cdd:COG1396     1 MSTLKKALGERLRELRKARGLTQEELAErLGvSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLG 68
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 84-136 1.08e-06

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: 42.93  E-value: 1.08e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1191156999  84 IRTLMDQYGLTLSDLPE-IG-SKSMVSRVLSGKRKLTLEHAKKLATRFGISPALF 136
Cdd:cd00093     4 LKELRKEKGLTQEELAEkLGvSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 84-136 2.35e-06

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: 42.14  E-value: 2.35e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1191156999  84 IRTLMDQYGLTLSDLPE-IG-SKSMVSRVLSGKRKLTLEHAKKLATRFGISPALF 136
Cdd:pfam01381   1 LKELREELGLSQEELAEkLGvSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
VapI COG3093
Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense ...
 71-137 2.70e-05

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


Pssm-ID: 442327 [Multi-domain]  Cd Length: 87  Bit Score: 40.18  E-value: 2.70e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1191156999  71 NAMAQAMPGGIaVIRTLMDQYGLTLSDLPE-IG-SKSMVSRVLSGKRKLTLEHAKKLATRFGISPALFI 137
Cdd:COG3093     2 NKRNPIHPGEI-LREEFLEPLGLSQTELAKaLGvSRQRISEILNGKRAITADTALRLARAFGTSAEFWL 69
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 73-132 9.83e-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: 38.38  E-value: 9.83e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1191156999  73 MAQAMPGGIA-----VIRTLMDQYGLTLSDLPE-IG-SKSMVSRVLSGKRKLTLEHAKKLATRFGIS 132
Cdd:COG1813     1 MAKESTGELVedygeRIREAREARGLSQEELAEkLGvSESTIRRIERGEATPSLDTLRKLEKALGIS 67
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
73-138 6.90e-04

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 35.98  E-value: 6.90e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1191156999  73 MAQAMPGGIAVIRTlmdQYGLTLSDLPE-IG-SKSMVSRVLSGKRKLTLEHAKKLATRFGISP-ALFID 138
Cdd:COG1476     1 MKKKLGNRLKELRK---ERGLTQEELAElLGvSRQTISAIENGKYNPSLELALKIARALGVSLeELFSL 66
antidote_HigA TIGR02607
addiction module antidote protein, HigA family; Members of this family form a distinct clade ...
 78-133 4.98e-03

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: 33.74  E-value: 4.98e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1191156999  78 PGGIaVIRTLMDQYGLTLSDLPE-IG-SKSMVSRVLSGKRKLTLEHAKKLATRFGISP 133
Cdd:TIGR02607   5 PGEI-LLEEFLEPLGLSVRALAKaLGvSRSTLSRIVNGRAAITADMALRLAKALGTSP 61
 
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