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Conserved domains on  [gi|532629937|gb|EQM55607|]
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hypothetical protein N692_02075 [Lactiplantibacillus plantarum EGD-AQ4]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CxxCG_CxxCG_HTH super family cl37335
putative zinc finger/helix-turn-helix protein, YgiT family; This model describes a family of ...
 56-122 6.36e-11

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.


The actual alignment was detected with superfamily member TIGR03830:

Pssm-ID: 274805 [Multi-domain]  Cd Length: 127  Bit Score: 57.26  E-value: 6.36e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 532629937   56 MENVTRSFAAYRSKKGYMTPEDIRKLRHKLGLTVRQFAKRLGIAPSSLTQIENDLRIQVKYQDNLFK 122
Cdd:TIGR03830  48 KRNSAALADFYRKVDGLLTGPEIRRIRKKLGLSQREAAELLGGGVNAFSRYERGEVRPSKALDKLLR 114
 
Name Accession Description Interval E-value
CxxCG_CxxCG_HTH TIGR03830
putative zinc finger/helix-turn-helix protein, YgiT family; This model describes a family of ...
 56-122 6.36e-11

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: 57.26  E-value: 6.36e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 532629937   56 MENVTRSFAAYRSKKGYMTPEDIRKLRHKLGLTVRQFAKRLGIAPSSLTQIENDLRIQVKYQDNLFK 122
Cdd:TIGR03830  48 KRNSAALADFYRKVDGLLTGPEIRRIRKKLGLSQREAAELLGGGVNAFSRYERGEVRPSKALDKLLR 114
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
73-108 9.17e-09

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


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 49.55  E-value: 9.17e-09
                         10        20        30
                 ....*....|....*....|....*....|....*.
gi 532629937  73 MTPEDIRKLRHKLGLTVRQFAKRLGIAPSSLTQIEN 108
Cdd:COG2944    6 LTPEEIRALRERLGLSQAEFAALLGVSVSTVRRWEQ 41
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
78-127 1.81e-08

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 48.67  E-value: 1.81e-08
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 532629937    78 IRKLRHKLGLTVRQFAKRLGIAPSSLTQIENDlRIQVKyQDNLFKAAKTF 127
Cdd:smart00530   2 LKELREEKGLTQEELAEKLGVSRSTLSRIENG-KRKPS-LETLKKLAKAL 49
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 76-127 2.01e-08

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: 48.70  E-value: 2.01e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 532629937  76 EDIRKLRHKLGLTVRQFAKRLGIAPSSLTQIENDlRIQVKyQDNLFKAAKTF 127
Cdd:cd00093    2 ERLKELRKEKGLTQEELAEKLGVSRSTISRIENG-KRNPS-LETLEKLAKAL 51
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 78-127 7.02e-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: 44.45  E-value: 7.02e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 532629937   78 IRKLRHKLGLTVRQFAKRLGIAPSSLTQIENDLRIqvKYQDNLFKAAKTF 127
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKRE--PSLETLKKLAEAL 48
 
Name Accession Description Interval E-value
CxxCG_CxxCG_HTH TIGR03830
putative zinc finger/helix-turn-helix protein, YgiT family; This model describes a family of ...
 56-122 6.36e-11

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: 57.26  E-value: 6.36e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 532629937   56 MENVTRSFAAYRSKKGYMTPEDIRKLRHKLGLTVRQFAKRLGIAPSSLTQIENDLRIQVKYQDNLFK 122
Cdd:TIGR03830  48 KRNSAALADFYRKVDGLLTGPEIRRIRKKLGLSQREAAELLGGGVNAFSRYERGEVRPSKALDKLLR 114
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
73-108 9.17e-09

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


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 49.55  E-value: 9.17e-09
                         10        20        30
                 ....*....|....*....|....*....|....*.
gi 532629937  73 MTPEDIRKLRHKLGLTVRQFAKRLGIAPSSLTQIEN 108
Cdd:COG2944    6 LTPEEIRALRERLGLSQAEFAALLGVSVSTVRRWEQ 41
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
78-127 1.81e-08

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 48.67  E-value: 1.81e-08
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 532629937    78 IRKLRHKLGLTVRQFAKRLGIAPSSLTQIENDlRIQVKyQDNLFKAAKTF 127
Cdd:smart00530   2 LKELREEKGLTQEELAEKLGVSRSTLSRIENG-KRKPS-LETLKKLAKAL 49
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 76-127 2.01e-08

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: 48.70  E-value: 2.01e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 532629937  76 EDIRKLRHKLGLTVRQFAKRLGIAPSSLTQIENDlRIQVKyQDNLFKAAKTF 127
Cdd:cd00093    2 ERLKELRKEKGLTQEELAEKLGVSRSTISRIENG-KRNPS-LETLEKLAKAL 51
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
56-111 7.42e-08

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 47.68  E-value: 7.42e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 532629937  56 MENVTRSFAAYrskkgymtpedIRKLRHKLGLTVRQFAKRLGIAPSSLTQIENDLR 111
Cdd:COG1396    1 MSTLKKALGER-----------LRELRKARGLTQEELAERLGVSRSTISRIERGRR 45
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 78-127 7.02e-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: 44.45  E-value: 7.02e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 532629937   78 IRKLRHKLGLTVRQFAKRLGIAPSSLTQIENDLRIqvKYQDNLFKAAKTF 127
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKRE--PSLETLKKLAEAL 48
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 78-118 3.37e-06

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: 42.90  E-value: 3.37e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 532629937   78 IRKLRHKLGLTVRQFAKRLGIAPSSLTQIENDLRIQVKYQD 118
Cdd:pfam13560   6 LRRLRERAGLSQEALARRLGVSRSTLSRLETGRRGRPSPAV 46
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 78-127 5.36e-06

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: 42.28  E-value: 5.36e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 532629937   78 IRKLRHKLGLTVRQFAKRLGIAPSSLTQIENDLRiqVKYQDNLFKAAKTF 127
Cdd:pfam12844   4 LRKAREERGLTQEELAERLGISRSQLSAIENGKS--VPPAETLYKIAELL 51
mob_myst_A TIGR02612
mobile mystery protein A; Members of this protein family are found in mobization-related ...
 61-109 1.54e-05

mobile mystery protein A; Members of this protein family are found in mobization-related contexts more often than not, including within a CRISPR-associated gene region in Geobacter sulfurreducens PCA, and on plasmids in Agrobacterium tumefaciens and Coxiella burnetii, always together with mobile mystery protein B, a member of the Fic protein family (pfam02661). This protein is encoded by the upstream member of the gene pair and belongs to a family of helix-turn-helix DNA binding proteins (pfam01381). [Unknown function, General]


Pssm-ID: 274231  Cd Length: 150  Bit Score: 42.88  E-value: 1.54e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 532629937   61 RSFAAYRSKKGYMTPED--IRKLRHKLGLTVRQFAKRLGIAPSSLTQIEND 109
Cdd:TIGR02612  11 QRLVALAGAGAIQTPKEgwVRAIRKALGMSGAQLAGRLGVTPQRVEALEKS 61
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
78-127 1.90e-05

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 40.99  E-value: 1.90e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 532629937  78 IRKLRHKLGLTVRQFAKRLGIAPSSLTQIENDlriqvKYQ---DNLFKAAKTF 127
Cdd:COG1476    9 LKELRKERGLTQEELAELLGVSRQTISAIENG-----KYNpslELALKIARAL 56
RodZ COG1426
Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell ...
 76-109 1.22e-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: 1.22e-04
                         10        20        30
                 ....*....|....*....|....*....|....
gi 532629937  76 EDIRKLRHKLGLTVRQFAKRLGIAPSSLTQIEND 109
Cdd:COG1426    8 ELLRQAREAKGLSLEDVAERTKISVSYLEAIEEG 41
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 75-112 1.36e-04

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: 38.77  E-value: 1.36e-04
                         10        20        30
                 ....*....|....*....|....*....|....*...
gi 532629937  75 PEDIRKLRHKLGLTVRQFAKRLGIAPSSLTQIENDLRI 112
Cdd:COG1813   14 GERIREAREARGLSQEELAEKLGVSESTIRRIERGEAT 51
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 76-135 1.22e-03

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: 36.54  E-value: 1.22e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 532629937  76 EDIRKLRHKLGLTVRQFAKRLGIAPSSLTQIENDLR-IQVkyqDNLFKAAKTFYEENGHLP 135
Cdd:COG3620   20 EALRLMRKELGLSQLPVAELVGVSQSDILRIESGKRdPTV---STLEKIAEALGKELSAVL 77
VapI COG3093
Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense ...
 85-108 2.59e-03

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


Pssm-ID: 442327 [Multi-domain]  Cd Length: 87  Bit Score: 35.56  E-value: 2.59e-03
                         10        20
                 ....*....|....*....|....
gi 532629937  85 LGLTVRQFAKRLGIAPSSLTQIEN 108
Cdd:COG3093   21 LGLSQTELAKALGVSRQRISEILN 44
 
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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