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Conserved domains on  [gi|1750988635|gb|QET28273|]
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helix-turn-helix transcriptional regulator (plasmid) [Klebsiella variicola]

Protein Classification

ArsR/SmtB family transcription factor( domain architecture ID 16677510)

ArsR (Arsenical Resistance Operon Repressor)/SmtB family transcription factor is a winged-helix-turn-helix transcriptional regulator that may be metal-sensing and modulate the expression of genes associated with metal homeostasis

Gene Ontology:  GO:0003700|GO:0006355|GO:0003677
PubMed:  10473770|28436329|12829264|28512703|30191942|15808743

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
sulf_sens_BigR super family cl46220
sulfite-sensing transcriptional repressor BigR; BigR (biofilm growth-associated repressor) is ...
 20-93 8.43e-26

sulfite-sensing transcriptional repressor BigR; BigR (biofilm growth-associated repressor) is a winged-helix DNA-binding protein active as a transcriptional regulator for Blh, a bifunctional sulfur transferase/dioxygenase found in a number of plant-associated bacteria. Oxidative conditions that allow disulfide bond formation between the invariant residues Cys42 and Cys108 cause BigR to lose DNA-binding transcriptional repressor activity.


The actual alignment was detected with superfamily member NF040642:

Pssm-ID: 468610  Cd Length: 95  Bit Score: 91.74  E-value: 8.43e-26
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1750988635  20 RLLLLCHLSQGEASVGQMESALGIGQPTLSQQLGVMRRLQLVATRREGKQIFYRIDDPNVLILLNTLYQLYCPK 93
Cdd:NF040642   22 RLMLVCTLVEGEYSVGELEEKLDIHQPTLSQQLTVLREAGIVETRREGKQIFYRLTEEKAAQLVGALYTIFCAK 95
 
Name Accession Description Interval E-value
sulf_sens_BigR NF040642
sulfite-sensing transcriptional repressor BigR; BigR (biofilm growth-associated repressor) is ...
 20-93 8.43e-26

sulfite-sensing transcriptional repressor BigR; BigR (biofilm growth-associated repressor) is a winged-helix DNA-binding protein active as a transcriptional regulator for Blh, a bifunctional sulfur transferase/dioxygenase found in a number of plant-associated bacteria. Oxidative conditions that allow disulfide bond formation between the invariant residues Cys42 and Cys108 cause BigR to lose DNA-binding transcriptional repressor activity.


Pssm-ID: 468610  Cd Length: 95  Bit Score: 91.74  E-value: 8.43e-26
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1750988635  20 RLLLLCHLSQGEASVGQMESALGIGQPTLSQQLGVMRRLQLVATRREGKQIFYRIDDPNVLILLNTLYQLYCPK 93
Cdd:NF040642   22 RLMLVCTLVEGEYSVGELEEKLDIHQPTLSQQLTVLREAGIVETRREGKQIFYRLTEEKAAQLVGALYTIFCAK 95
ArsR COG0640
DNA-binding transcriptional regulator, ArsR family [Transcription];
20-90 9.02e-22

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


Pssm-ID: 440405 [Multi-domain]  Cd Length: 92  Bit Score: 81.47  E-value: 9.02e-22
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1750988635  20 RLLLLCHLSQGEASVGQMESALGIGQPTLSQQLGVMRRLQLVATRREGKQIFYRIDDPNVLILLNTLYQLY 90
Cdd:COG0640    22 RLRILRLLAEGELCVGELAEALGLSQSTVSHHLKVLREAGLVTSRREGRWVYYRLADEALAELLEWLLELL 92
HTH_metalloreg NF033788
metalloregulator ArsR/SmtB family transcription factor; Transcriptional repressors that sense ...
 20-83 4.09e-21

metalloregulator ArsR/SmtB family transcription factor; Transcriptional repressors that sense toxic heavy metals such as arsenic or cadmium, and are released from DNA so that resistance factors will be expressed, include ArsR, SmtB, ZiaR, CadC, CadX, KmtR, etc. However, some members of this family, including the sporulation delaying system autorepressor SdpR and its family (see NF033789), may lack metal-binding cites and instead regulate other cellular processes.


Pssm-ID: 411368 [Multi-domain]  Cd Length: 76  Bit Score: 79.43  E-value: 4.09e-21
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1750988635  20 RLLLLCHLSQGEASVGQMESALGIGQPTLSQQLGVMRRLQLVATRREGKQIFYRIDDPNVLILL 83
Cdd:NF033788   13 RLRILELLAEGELCVCELAEALGLSQSAVSQHLKVLRDAGLVTSRREGRWVYYRLADEHVAELL 76
HTH_ARSR smart00418
helix_turn_helix, Arsenical Resistance Operon Repressor;
23-86 4.39e-16

helix_turn_helix, Arsenical Resistance Operon Repressor;


Pssm-ID: 197713 [Multi-domain]  Cd Length: 66  Bit Score: 66.47  E-value: 4.39e-16
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1750988635   23 LLCHLSQGEASVGQMESALGIGQPTLSQQLGVMRRLQLVATRREGKQIFYRIDDPNVLILLNTL 86
Cdd:smart00418   2 ILKLLAEGELCVCELAEILGLSQSTVSHHLKKLREAGLVESRREGKRVYYSLTDEKVADLLEEL 65
HTH_ARSR cd00090
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 20-86 9.95e-14

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: 60.78  E-value: 9.95e-14
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1750988635  20 RLLLLCHLSQGEASVGQMESALGIGQPTLSQQLGVMRRLQLVATRREGKQIFYRIDD-PNVLILLNTL 86
Cdd:cd00090     9 RLRILRLLLEGPLTVSELAERLGLSQSTVSRHLKKLEEAGLVESRREGRRVYYSLTDaERLLALLESL 76
PRK09775 PRK09775
type II toxin-antitoxin system HipA family toxin YjjJ;
27-101 8.57e-06

type II toxin-antitoxin system HipA family toxin YjjJ;


Pssm-ID: 236623 [Multi-domain]  Cd Length: 442  Bit Score: 42.64  E-value: 8.57e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1750988635  27 LSQGEASVGQMESALGIGQPTLSQQL----------GVMRRLQLVATR--REGKQI-FYRIDDPNVLILLNTLYQLY--- 90
Cdd:PRK09775    9 LLQGPLSAAELAARLGVSQATLSRLLaalgdqvvrfGKARATRYALLRplRGVSRFpLYRVDEDGQAHKFGQLYPVWpag 88

                          90
                  ....*....|..
gi 1750988635  91 -CPKDDAEGVNH 101
Cdd:PRK09775   89 fCVVLDADGDWG 100
HTH_20 pfam12840
Helix-turn-helix domain; This domain represents a DNA-binding Helix-turn-helix domain found in ...
 20-68 4.52e-03

Helix-turn-helix domain; This domain represents a DNA-binding Helix-turn-helix domain found in transcriptional regulatory proteins.


Pssm-ID: 432824 [Multi-domain]  Cd Length: 61  Bit Score: 32.90  E-value: 4.52e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1750988635  20 RLLLLCHLSQGE-ASVGQMESALGIGQPTLSQQLGVMRRLQLVATRREGK 68
Cdd:pfam12840  12 RLRILRALVGDEpLTASELARRLDISRNTLSYHLRKLEEAGLVEVVREGR 61
 
Name Accession Description Interval E-value
sulf_sens_BigR NF040642
sulfite-sensing transcriptional repressor BigR; BigR (biofilm growth-associated repressor) is ...
 20-93 8.43e-26

sulfite-sensing transcriptional repressor BigR; BigR (biofilm growth-associated repressor) is a winged-helix DNA-binding protein active as a transcriptional regulator for Blh, a bifunctional sulfur transferase/dioxygenase found in a number of plant-associated bacteria. Oxidative conditions that allow disulfide bond formation between the invariant residues Cys42 and Cys108 cause BigR to lose DNA-binding transcriptional repressor activity.


Pssm-ID: 468610  Cd Length: 95  Bit Score: 91.74  E-value: 8.43e-26
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1750988635  20 RLLLLCHLSQGEASVGQMESALGIGQPTLSQQLGVMRRLQLVATRREGKQIFYRIDDPNVLILLNTLYQLYCPK 93
Cdd:NF040642   22 RLMLVCTLVEGEYSVGELEEKLDIHQPTLSQQLTVLREAGIVETRREGKQIFYRLTEEKAAQLVGALYTIFCAK 95
ArsR COG0640
DNA-binding transcriptional regulator, ArsR family [Transcription];
20-90 9.02e-22

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


Pssm-ID: 440405 [Multi-domain]  Cd Length: 92  Bit Score: 81.47  E-value: 9.02e-22
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1750988635  20 RLLLLCHLSQGEASVGQMESALGIGQPTLSQQLGVMRRLQLVATRREGKQIFYRIDDPNVLILLNTLYQLY 90
Cdd:COG0640    22 RLRILRLLAEGELCVGELAEALGLSQSTVSHHLKVLREAGLVTSRREGRWVYYRLADEALAELLEWLLELL 92
HTH_metalloreg NF033788
metalloregulator ArsR/SmtB family transcription factor; Transcriptional repressors that sense ...
 20-83 4.09e-21

metalloregulator ArsR/SmtB family transcription factor; Transcriptional repressors that sense toxic heavy metals such as arsenic or cadmium, and are released from DNA so that resistance factors will be expressed, include ArsR, SmtB, ZiaR, CadC, CadX, KmtR, etc. However, some members of this family, including the sporulation delaying system autorepressor SdpR and its family (see NF033789), may lack metal-binding cites and instead regulate other cellular processes.


Pssm-ID: 411368 [Multi-domain]  Cd Length: 76  Bit Score: 79.43  E-value: 4.09e-21
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1750988635  20 RLLLLCHLSQGEASVGQMESALGIGQPTLSQQLGVMRRLQLVATRREGKQIFYRIDDPNVLILL 83
Cdd:NF033788   13 RLRILELLAEGELCVCELAEALGLSQSAVSQHLKVLRDAGLVTSRREGRWVYYRLADEHVAELL 76
HTH_ARSR smart00418
helix_turn_helix, Arsenical Resistance Operon Repressor;
23-86 4.39e-16

helix_turn_helix, Arsenical Resistance Operon Repressor;


Pssm-ID: 197713 [Multi-domain]  Cd Length: 66  Bit Score: 66.47  E-value: 4.39e-16
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1750988635   23 LLCHLSQGEASVGQMESALGIGQPTLSQQLGVMRRLQLVATRREGKQIFYRIDDPNVLILLNTL 86
Cdd:smart00418   2 ILKLLAEGELCVCELAEILGLSQSTVSHHLKKLREAGLVESRREGKRVYYSLTDEKVADLLEEL 65
HTH_ARSR cd00090
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 20-86 9.95e-14

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: 60.78  E-value: 9.95e-14
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1750988635  20 RLLLLCHLSQGEASVGQMESALGIGQPTLSQQLGVMRRLQLVATRREGKQIFYRIDD-PNVLILLNTL 86
Cdd:cd00090     9 RLRILRLLLEGPLTVSELAERLGLSQSTVSRHLKKLEEAGLVESRREGRRVYYSLTDaERLLALLESL 76
PRK09775 PRK09775
type II toxin-antitoxin system HipA family toxin YjjJ;
27-101 8.57e-06

type II toxin-antitoxin system HipA family toxin YjjJ;


Pssm-ID: 236623 [Multi-domain]  Cd Length: 442  Bit Score: 42.64  E-value: 8.57e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1750988635  27 LSQGEASVGQMESALGIGQPTLSQQL----------GVMRRLQLVATR--REGKQI-FYRIDDPNVLILLNTLYQLY--- 90
Cdd:PRK09775    9 LLQGPLSAAELAARLGVSQATLSRLLaalgdqvvrfGKARATRYALLRplRGVSRFpLYRVDEDGQAHKFGQLYPVWpag 88

                          90
                  ....*....|..
gi 1750988635  91 -CPKDDAEGVNH 101
Cdd:PRK09775   89 fCVVLDADGDWG 100
PRK10141 PRK10141
DNA-binding transcriptional repressor ArsR; Provisional
 30-74 9.69e-04

DNA-binding transcriptional repressor ArsR; Provisional


Pssm-ID: 236654  Cd Length: 117  Bit Score: 35.56  E-value: 9.69e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1750988635  30 GEASVGQMESALGIGQPTLSQQLGVMRRLQLVATRREGKQIFYRI 74
Cdd:PRK10141   29 GELCVCDLCTALDQSQPKISRHLALLRESGLLLDRKQGKWVHYRL 73
COG3398 COG3398
Predicted transcriptional regulator, contains two HTH domains [Transcription];
21-77 2.72e-03

Predicted transcriptional regulator, contains two HTH domains [Transcription];


Pssm-ID: 442625 [Multi-domain]  Cd Length: 159  Bit Score: 34.85  E-value: 2.72e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1750988635  21 LLLLchLSQGEASVGQMESALGIGQPTLSQQLGVMRRLQLVATRREGKQIFYRIDDP 77
Cdd:COG3398   103 LLYL--LENPGATNKELAEELGISRSTVSWHLKRLEEDGLVERERDGRNVRYYLNPP 157
HTH_20 pfam12840
Helix-turn-helix domain; This domain represents a DNA-binding Helix-turn-helix domain found in ...
 20-68 4.52e-03

Helix-turn-helix domain; This domain represents a DNA-binding Helix-turn-helix domain found in transcriptional regulatory proteins.


Pssm-ID: 432824 [Multi-domain]  Cd Length: 61  Bit Score: 32.90  E-value: 4.52e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1750988635  20 RLLLLCHLSQGE-ASVGQMESALGIGQPTLSQQLGVMRRLQLVATRREGK 68
Cdd:pfam12840  12 RLRILRALVGDEpLTASELARRLDISRNTLSYHLRKLEEAGLVEVVREGR 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.
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