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Conserved domains on  [gi|534533909|gb|EFE46188|]
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hypothetical protein HMPREF0863_01965 [Erysipelotrichaceae bacterium 5_2_54FAA]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
YrhO super family cl28554
Sugar-specific transcriptional regulator TrmB [Transcription];
2-50 1.52e-05

Sugar-specific transcriptional regulator TrmB [Transcription];


The actual alignment was detected with superfamily member COG1378:

Pssm-ID: 440988 [Multi-domain]  Cd Length: 238  Bit Score: 40.00  E-value: 1.52e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 534533909   2 ENKAYI--------TASELAELLGISVSRAYRIIhdmnKELANKGYLTVAGRVPTKY 50
Cdd:COG1378   15 EAKVYLallelgpaTASELAKASGVPRSRVYDVL----ESLEEKGLVEVSEGRPKRY 67
 
Name Accession Description Interval E-value
YrhO COG1378
Sugar-specific transcriptional regulator TrmB [Transcription];
2-50 1.52e-05

Sugar-specific transcriptional regulator TrmB [Transcription];


Pssm-ID: 440988 [Multi-domain]  Cd Length: 238  Bit Score: 40.00  E-value: 1.52e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 534533909   2 ENKAYI--------TASELAELLGISVSRAYRIIhdmnKELANKGYLTVAGRVPTKY 50
Cdd:COG1378   15 EAKVYLallelgpaTASELAKASGVPRSRVYDVL----ESLEEKGLVEVSEGRPKRY 67
HTH_ARSR cd00090
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 7-52 4.17e-04

Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.


Pssm-ID: 238042 [Multi-domain]  Cd Length: 78  Bit Score: 34.58  E-value: 4.17e-04
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*.
gi 534533909  7 ITASELAELLGISVSRAYRIIhdmnKELANKGYLTVAGRVPTKYFE 52
Cdd:cd00090  21 LTVSELAERLGLSQSTVSRHL----KKLEEAGLVESRREGRRVYYS 62
HTH_11 pfam08279
HTH domain; This family includes helix-turn-helix domains in a wide variety of proteins.
 1-39 8.87e-04

HTH domain; This family includes helix-turn-helix domains in a wide variety of proteins.


Pssm-ID: 429896 [Multi-domain]  Cd Length: 52  Bit Score: 33.17  E-value: 8.87e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 534533909   1 MENKAYITASELAELLGISVSRAYRIIHDMNKELA------NKGY 39
Cdd:pfam08279  8 LEARGPISGQELAEKLGVSRRTIRRDIKILEELGVpieaepGRGY 52
PRK14165 PRK14165
winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
 3-41 1.67e-03

winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional


Pssm-ID: 184548 [Multi-domain]  Cd Length: 217  Bit Score: 34.27  E-value: 1.67e-03
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 534533909   3 NKAYITASELAELLGISVSRAYRIIHDMNKElankGYLT 41
Cdd:PRK14165  18 NTVKISSSEFANHTGTSSKTAARILKQLEDE----GYIT 52
 
Name Accession Description Interval E-value
YrhO COG1378
Sugar-specific transcriptional regulator TrmB [Transcription];
2-50 1.52e-05

Sugar-specific transcriptional regulator TrmB [Transcription];


Pssm-ID: 440988 [Multi-domain]  Cd Length: 238  Bit Score: 40.00  E-value: 1.52e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 534533909   2 ENKAYI--------TASELAELLGISVSRAYRIIhdmnKELANKGYLTVAGRVPTKY 50
Cdd:COG1378   15 EAKVYLallelgpaTASELAKASGVPRSRVYDVL----ESLEEKGLVEVSEGRPKRY 67
HTH_ARSR cd00090
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 7-52 4.17e-04

Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.


Pssm-ID: 238042 [Multi-domain]  Cd Length: 78  Bit Score: 34.58  E-value: 4.17e-04
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*.
gi 534533909  7 ITASELAELLGISVSRAYRIIhdmnKELANKGYLTVAGRVPTKYFE 52
Cdd:cd00090  21 LTVSELAERLGLSQSTVSRHL----KKLEEAGLVESRREGRRVYYS 62
HTH_11 pfam08279
HTH domain; This family includes helix-turn-helix domains in a wide variety of proteins.
 1-39 8.87e-04

HTH domain; This family includes helix-turn-helix domains in a wide variety of proteins.


Pssm-ID: 429896 [Multi-domain]  Cd Length: 52  Bit Score: 33.17  E-value: 8.87e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 534533909   1 MENKAYITASELAELLGISVSRAYRIIHDMNKELA------NKGY 39
Cdd:pfam08279  8 LEARGPISGQELAEKLGVSRRTIRRDIKILEELGVpieaepGRGY 52
IclR COG1414
DNA-binding transcriptional regulator, IclR family [Transcription];
7-41 9.51e-04

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


Pssm-ID: 441024 [Multi-domain]  Cd Length: 253  Bit Score: 34.80  E-value: 9.51e-04
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 534533909   7 ITASELAELLGISVSRAYRIIHdmnkELANKGYLT 41
Cdd:COG1414   25 LSLSELARRLGLPKSTVHRLLA----TLEEEGYVE 55
PRK14165 PRK14165
winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
 3-41 1.67e-03

winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional


Pssm-ID: 184548 [Multi-domain]  Cd Length: 217  Bit Score: 34.27  E-value: 1.67e-03
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 534533909   3 NKAYITASELAELLGISVSRAYRIIHDMNKElankGYLT 41
Cdd:PRK14165  18 NTVKISSSEFANHTGTSSKTAARILKQLEDE----GYIT 52
TrmB pfam01978
Sugar-specific transcriptional regulator TrmB; One member of this family, TrmB, has been shown ...
 1-50 1.87e-03

Sugar-specific transcriptional regulator TrmB; One member of this family, TrmB, has been shown to be a sugar-specific transcriptional regulator of the trehalose/maltose ABC transporter in Thermococcus litoralis.


Pssm-ID: 396525 [Multi-domain]  Cd Length: 67  Bit Score: 32.49  E-value: 1.87e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 534533909   1 MENKAYI--------TASELAELLGISVSRAYRIIhdmnKELANKGYLTVAGRVPTKY 50
Cdd:pfam01978  9 YEAKVYLallklgpaTADEIAEESGVPRSKVYEVL----RSLEDKGLVEREKGRPKKY 62
COG3355 COG3355
Predicted transcriptional regulator [Transcription];
1-41 4.82e-03

Predicted transcriptional regulator [Transcription];


Pssm-ID: 442583 [Multi-domain]  Cd Length: 131  Bit Score: 32.63  E-value: 4.82e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 534533909   1 MENKAYITASELAELLGISVSRAYRIIhdmnKELANKGYLT 41
Cdd:COG3355   37 LENGEPLTVEELAEALDRSRSTVYRSL----QKLLEAGLVE 73
Mga pfam05043
Mga helix-turn-helix domain; M regulator protein trans-acting positive regulator (Mga) is a ...
 6-35 4.95e-03

Mga helix-turn-helix domain; M regulator protein trans-acting positive regulator (Mga) is a DNA-binding protein that activates the expression of several important virulence genes in group A streptococcus in response to changing environmental conditions. This domain is found in the centre of the Mga proteins. This family also contains a number of bacterial RofA transcriptional regulators that seem to be largely restricted to streptococci. These proteins have been shown to regulate the expression of important bacterial adhesins. This is presumably a DNA-binding domain.


Pssm-ID: 428276 [Multi-domain]  Cd Length: 87  Bit Score: 31.81  E-value: 4.95e-03
                         10        20        30
                 ....*....|....*....|....*....|
gi 534533909   6 YITASELAELLGISVSRAYRIIHDMNKELA 35
Cdd:pfam05043 30 FVSIKSLAQKLYISESTLYRKIKELNKLLK 59
HTH_24 pfam13412
Winged helix-turn-helix DNA-binding;
1-40 5.21e-03

Winged helix-turn-helix DNA-binding;


Pssm-ID: 404317 [Multi-domain]  Cd Length: 45  Bit Score: 30.86  E-value: 5.21e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 534533909   1 MENKAYITASELAELLGISVSRAYRIIhdmnKELANKGYL 40
Cdd:pfam13412 10 LQENPRISQRELAERLGLSPSTVNRRL----KRLEEEGVI 45
 
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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