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Conserved domains on  [gi|489739761|ref|WP_003643839|]
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MULTISPECIES: transcriptional regulator [Lactiplantibacillus]

Protein Classification

transcriptional regulator( domain architecture ID 11459460)

transcriptional regulator containing a PAS and a DNA-binding helix-turn-helix domain

Gene Ontology:  GO:0003677|GO:0140110

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
YheO COG2964
Predicted transcriptional regulator YheO, contains PAS and DNA-binding HTH domains ...
 8-236 3.80e-77

Predicted transcriptional regulator YheO, contains PAS and DNA-binding HTH domains [Transcription];


:

Pssm-ID: 442204 [Multi-domain]  Cd Length: 214  Bit Score: 231.66  E-value: 3.80e-77
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489739761   8 EQEYVREFIPFVDFLADILGPSSEVVLNDLLDLNHSVVAIRNSHISHRQVGDPATDLALRTMKAGKAEKRDYLANYKGVS 87
Cdd:COG2964    5 DKELLESYIPIADGLAALFGPNCEVVLHDLEDPEHSIVAIANGHVSGRKVGDPITDLGLELLKDGAYEDPDVIGNYETRT 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489739761  88 QGKHSLRSSTYFLR-LDGEIVGMICINTDDSALDDLQEqvlkvmasykhlnspTINQLKGTPANEkahdtPVAPEHLTTS 166
Cdd:COG2964   85 KDGRLLKSSTIFIRdEKGKPIGALCINFDLSKFEAAQN---------------FLDSFLPTDDSE-----EEPPENFASD 144

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489739761 167 ITDLAREVTQAVCAKYGVSVEYLKQNEKLEIVRSLYHQGYFLLKDSVSEAAKVLKVSDPSVYRYLQTVKD 236
Cdd:COG2964  145 VEELIDEIIDEALAEVGKPPSALSKEEKIEIVRELDEKGIFLIKGAVDYVAKRLGISRATVYNYLREIKK 214
 
Name Accession Description Interval E-value
YheO COG2964
Predicted transcriptional regulator YheO, contains PAS and DNA-binding HTH domains ...
 8-236 3.80e-77

Predicted transcriptional regulator YheO, contains PAS and DNA-binding HTH domains [Transcription];


Pssm-ID: 442204 [Multi-domain]  Cd Length: 214  Bit Score: 231.66  E-value: 3.80e-77
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489739761   8 EQEYVREFIPFVDFLADILGPSSEVVLNDLLDLNHSVVAIRNSHISHRQVGDPATDLALRTMKAGKAEKRDYLANYKGVS 87
Cdd:COG2964    5 DKELLESYIPIADGLAALFGPNCEVVLHDLEDPEHSIVAIANGHVSGRKVGDPITDLGLELLKDGAYEDPDVIGNYETRT 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489739761  88 QGKHSLRSSTYFLR-LDGEIVGMICINTDDSALDDLQEqvlkvmasykhlnspTINQLKGTPANEkahdtPVAPEHLTTS 166
Cdd:COG2964   85 KDGRLLKSSTIFIRdEKGKPIGALCINFDLSKFEAAQN---------------FLDSFLPTDDSE-----EEPPENFASD 144

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489739761 167 ITDLAREVTQAVCAKYGVSVEYLKQNEKLEIVRSLYHQGYFLLKDSVSEAAKVLKVSDPSVYRYLQTVKD 236
Cdd:COG2964  145 VEELIDEIIDEALAEVGKPPSALSKEEKIEIVRELDEKGIFLIKGAVDYVAKRLGISRATVYNYLREIKK 214
PAS_6 pfam08348
YheO-like PAS domain; This family contains various hypothetical bacterial proteins that are ...
 15-125 1.03e-48

YheO-like PAS domain; This family contains various hypothetical bacterial proteins that are similar to the E. coli protein YheO. Their function is unknown, but are likely to be involved in signalling based on the presence of this PAS domain.


Pssm-ID: 429938 [Multi-domain]  Cd Length: 115  Bit Score: 156.14  E-value: 1.03e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489739761   15 FIPFVDFLADILGPSSEVVLNDLLDLNHSVVAIRNSHISHRQVGDPATDLALRTMKAGKAEKRDYLANYKGVSQGKHSLR 94
Cdd:pfam08348   4 YIPIADGLAETFGPNCEVVLHDLRDPEHSIVAIANGHVTGRKVGDPITDLALELLKQEEYEEKDYLINYKTKTKDGRILK 83

                          90       100       110
                  ....*....|....*....|....*....|..
gi 489739761   95 SSTYFLR-LDGEIVGMICINTDDSALDDLQEQ 125
Cdd:pfam08348  84 SSTIFIRdEDGKIIGLLCINFDITALLAAQNA 115
HTH_Hin_like cd00569
Helix-turn-helix domain of Hin and related proteins; This domain model summarizes a family of ...
 193-231 4.01e-04

Helix-turn-helix domain of Hin and related proteins; This domain model summarizes a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed helical bundle. The principal DNA-protein interface is formed by the third helix, the recognition helix, inserting itself into the major groove of the DNA. A diverse array of HTH domains participate in a variety of functions that depend on their DNA-binding properties. HTH_Hin represents one of the simplest versions of the HTH domains; the characterization of homologous relationships between various sequence-diverse HTH domain families remains difficult. The Hin recombinase induces the site-specific inversion of a chromosomal DNA segment containing a promoter, which controls the alternate expression of two genes by reversibly switching orientation. The Hin recombinase consists of a single polypeptide chain containing a C-terminal DNA-binding domain (HTH_Hin) and a catalytic domain.


Pssm-ID: 259851 [Multi-domain]  Cd Length: 42  Bit Score: 36.92  E-value: 4.01e-04
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 489739761 193 EKLEIVRSLYHQGyfllkDSVSEAAKVLKVSDPSVYRYL 231
Cdd:cd00569    9 EQIAEARRLLAAG-----ESVAEIARELGVSRSTLYRYL 42
 
Name Accession Description Interval E-value
YheO COG2964
Predicted transcriptional regulator YheO, contains PAS and DNA-binding HTH domains ...
 8-236 3.80e-77

Predicted transcriptional regulator YheO, contains PAS and DNA-binding HTH domains [Transcription];


Pssm-ID: 442204 [Multi-domain]  Cd Length: 214  Bit Score: 231.66  E-value: 3.80e-77
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489739761   8 EQEYVREFIPFVDFLADILGPSSEVVLNDLLDLNHSVVAIRNSHISHRQVGDPATDLALRTMKAGKAEKRDYLANYKGVS 87
Cdd:COG2964    5 DKELLESYIPIADGLAALFGPNCEVVLHDLEDPEHSIVAIANGHVSGRKVGDPITDLGLELLKDGAYEDPDVIGNYETRT 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489739761  88 QGKHSLRSSTYFLR-LDGEIVGMICINTDDSALDDLQEqvlkvmasykhlnspTINQLKGTPANEkahdtPVAPEHLTTS 166
Cdd:COG2964   85 KDGRLLKSSTIFIRdEKGKPIGALCINFDLSKFEAAQN---------------FLDSFLPTDDSE-----EEPPENFASD 144

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489739761 167 ITDLAREVTQAVCAKYGVSVEYLKQNEKLEIVRSLYHQGYFLLKDSVSEAAKVLKVSDPSVYRYLQTVKD 236
Cdd:COG2964  145 VEELIDEIIDEALAEVGKPPSALSKEEKIEIVRELDEKGIFLIKGAVDYVAKRLGISRATVYNYLREIKK 214
PAS_6 pfam08348
YheO-like PAS domain; This family contains various hypothetical bacterial proteins that are ...
 15-125 1.03e-48

YheO-like PAS domain; This family contains various hypothetical bacterial proteins that are similar to the E. coli protein YheO. Their function is unknown, but are likely to be involved in signalling based on the presence of this PAS domain.


Pssm-ID: 429938 [Multi-domain]  Cd Length: 115  Bit Score: 156.14  E-value: 1.03e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489739761   15 FIPFVDFLADILGPSSEVVLNDLLDLNHSVVAIRNSHISHRQVGDPATDLALRTMKAGKAEKRDYLANYKGVSQGKHSLR 94
Cdd:pfam08348   4 YIPIADGLAETFGPNCEVVLHDLRDPEHSIVAIANGHVTGRKVGDPITDLALELLKQEEYEEKDYLINYKTKTKDGRILK 83

                          90       100       110
                  ....*....|....*....|....*....|..
gi 489739761   95 SSTYFLR-LDGEIVGMICINTDDSALDDLQEQ 125
Cdd:pfam08348  84 SSTIFIRdEDGKIIGLLCINFDITALLAAQNA 115
HTH_22 pfam13309
HTH domain; This domain is a helix-turn-helix domain that is likely to act as a DNA-binding ...
 172-231 8.64e-20

HTH domain; This domain is a helix-turn-helix domain that is likely to act as a DNA-binding domain.


Pssm-ID: 463841 [Multi-domain]  Cd Length: 63  Bit Score: 79.82  E-value: 8.64e-20
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 489739761  172 REVTQAVCAKYGVSVEYLKQNEKLEIVRSLYHQGYFLLKDSVSEAAKVLKVSDPSVYRYL 231
Cdd:pfam13309   3 DSIIDEVLADVGKPPARLTKEEKREIVRALDEKGAFLLKGAVEKVAKRLGVSRATVYNYL 62
HTH_Hin_like cd00569
Helix-turn-helix domain of Hin and related proteins; This domain model summarizes a family of ...
 193-231 4.01e-04

Helix-turn-helix domain of Hin and related proteins; This domain model summarizes a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed helical bundle. The principal DNA-protein interface is formed by the third helix, the recognition helix, inserting itself into the major groove of the DNA. A diverse array of HTH domains participate in a variety of functions that depend on their DNA-binding properties. HTH_Hin represents one of the simplest versions of the HTH domains; the characterization of homologous relationships between various sequence-diverse HTH domain families remains difficult. The Hin recombinase induces the site-specific inversion of a chromosomal DNA segment containing a promoter, which controls the alternate expression of two genes by reversibly switching orientation. The Hin recombinase consists of a single polypeptide chain containing a C-terminal DNA-binding domain (HTH_Hin) and a catalytic domain.


Pssm-ID: 259851 [Multi-domain]  Cd Length: 42  Bit Score: 36.92  E-value: 4.01e-04
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 489739761 193 EKLEIVRSLYHQGyfllkDSVSEAAKVLKVSDPSVYRYL 231
Cdd:cd00569    9 EQIAEARRLLAAG-----ESVAEIARELGVSRSTLYRYL 42
 
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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