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Conserved domains on  [gi|488395154|ref|WP_002464539|]
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MarR family transcriptional regulator [Staphylococcus simiae]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 229396)

helix-turn-helix domain-containing protein may bind DNA and be involved in the regulation of gene expression

Gene Ontology:  GO:0003677|GO:0006355

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HTH_ARSR super family cl46857
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 12-117 5.61e-17

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.


The actual alignment was detected with superfamily member TIGR01889:

Pssm-ID: 481197  Cd Length: 109  Bit Score: 74.21  E-value: 5.61e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488395154   12 NRFIDIESYIYYLTRELKQKSEFSLKELLILAYI--FYKGENNISLKEIISDILCKQSEIVQIIKSLAKKEYIEKSRNTS 89
Cdd:TIGR01889   1 KDLLSLYLYIKSLKRYLKKEFNLSLEELLILYYLgkLENNEGKLTLKEIIKEILIKQSALVKIIKKLSKKGYLSKERSED 80

                          90       100
                  ....*....|....*....|....*...
gi 488395154   90 DERRIYISVNSIQQELISNKIKFLDNII 117
Cdd:TIGR01889  81 DERKVIISINKEQRSKIESLISEIEQII 108
HTH_ARSR super family cl46857
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 137-243 4.90e-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.


The actual alignment was detected with superfamily member TIGR01889:

Pssm-ID: 481197  Cd Length: 109  Bit Score: 66.12  E-value: 4.90e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488395154  137 KELFSLYIHLLYLKDYLKNQFKLTFLDFTLLSRV--LSKDKDALTLKDLIDSIRFMYPQVVRAINKLNEKDLLTKERFLA 214
Cdd:TIGR01889   1 KDLLSLYLYIKSLKRYLKKEFNLSLEELLILYYLgkLENNEGKLTLKEIIKEILIKQSALVKIIKKLSKKGYLSKERSED 80

                          90       100
                  ....*....|....*....|....*....
gi 488395154  215 DERIVLVRTNKKQLDFAINIIKDISKILN 243
Cdd:TIGR01889  81 DERKVIISINKEQRSKIESLISEIEQIIK 109
 
Name Accession Description Interval E-value
Staph_reg_Sar TIGR01889
staphylococcal accessory regulator family; This model represents a family of transcriptional ...
 12-117 5.61e-17

staphylococcal accessory regulator family; This model represents a family of transcriptional regulatory proteins in Staphylococcus aureus and Staphylococcus epidermidis. Some members contain two tandem copies of this region. This family is related to the MarR transcriptional regulator family described by pfam01047. [Regulatory functions, DNA interactions]


Pssm-ID: 130944  Cd Length: 109  Bit Score: 74.21  E-value: 5.61e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488395154   12 NRFIDIESYIYYLTRELKQKSEFSLKELLILAYI--FYKGENNISLKEIISDILCKQSEIVQIIKSLAKKEYIEKSRNTS 89
Cdd:TIGR01889   1 KDLLSLYLYIKSLKRYLKKEFNLSLEELLILYYLgkLENNEGKLTLKEIIKEILIKQSALVKIIKKLSKKGYLSKERSED 80

                          90       100
                  ....*....|....*....|....*...
gi 488395154   90 DERRIYISVNSIQQELISNKIKFLDNII 117
Cdd:TIGR01889  81 DERKVIISINKEQRSKIESLISEIEQII 108
Staph_reg_Sar TIGR01889
staphylococcal accessory regulator family; This model represents a family of transcriptional ...
 137-243 4.90e-14

staphylococcal accessory regulator family; This model represents a family of transcriptional regulatory proteins in Staphylococcus aureus and Staphylococcus epidermidis. Some members contain two tandem copies of this region. This family is related to the MarR transcriptional regulator family described by pfam01047. [Regulatory functions, DNA interactions]


Pssm-ID: 130944  Cd Length: 109  Bit Score: 66.12  E-value: 4.90e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488395154  137 KELFSLYIHLLYLKDYLKNQFKLTFLDFTLLSRV--LSKDKDALTLKDLIDSIRFMYPQVVRAINKLNEKDLLTKERFLA 214
Cdd:TIGR01889   1 KDLLSLYLYIKSLKRYLKKEFNLSLEELLILYYLgkLENNEGKLTLKEIIKEILIKQSALVKIIKKLSKKGYLSKERSED 80

                          90       100
                  ....*....|....*....|....*....
gi 488395154  215 DERIVLVRTNKKQLDFAINIIKDISKILN 243
Cdd:TIGR01889  81 DERKVIISINKEQRSKIESLISEIEQIIK 109
MarR COG1846
DNA-binding transcriptional regulator, MarR family [Transcription];
24-97 8.77e-04

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


Pssm-ID: 441451 [Multi-domain]  Cd Length: 142  Bit Score: 38.41  E-value: 8.77e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 488395154  24 LTRELKQ---KSEFSLKELLILAYIFYKGEnnISLKEIISDILCKQSEIVQIIKSLAKKEYIEKSRNTSDERRIYIS 97
Cdd:COG1846   23 LRRALDRalaELGLTPAQFRVLAALAEAGG--LTQSELAERLGLTKSTVSRLLDRLEEKGLVEREPDPEDRRAVLVR 97
MarR pfam01047
MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a ...
 34-94 1.00e-03

MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system. The expression of the mar operon is controlled by a repressor, MarR. A large number of compounds induce transcription of the mar operon. This is thought to be due to the compound binding to MarR, and the resulting complex stops MarR binding to the DNA. With the MarR repression lost, transcription of the operon proceeds. The structure of MarR is known and shows MarR as a dimer with each subunit containing a winged-helix DNA binding motif.


Pssm-ID: 426012 [Multi-domain]  Cd Length: 59  Bit Score: 36.37  E-value: 1.00e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 488395154   34 FSLKELLILAYIFYKGenNISLKEIISDILCKQSEIVQIIKSLAKKEYIEKSRNTSDERRI 94
Cdd:pfam01047   1 LTLTQFHILRILYEHG--PLTVSELAEKLGVSKSTVTRVLDRLEKKGLIERSRSPEDRREV 59
HTH_MARR smart00347
helix_turn_helix multiple antibiotic resistance protein;
30-97 1.08e-03

helix_turn_helix multiple antibiotic resistance protein;


Pssm-ID: 197670 [Multi-domain]  Cd Length: 101  Bit Score: 37.57  E-value: 1.08e-03
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 488395154    30 QKSEFSLKELLILAYIFYKGenNISLKEIISDILCKQSEIVQIIKSLAKKEYIEKSRNTSDERRIYIS 97
Cdd:smart00347   4 KPLGLTPTQFLVLRILYEEG--PLSVSELAKRLGVSPSTVTRVLDRLEKKGLVRREPSPEDRRSVLVS 69
MarR_2 pfam12802
MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a ...
 159-218 1.93e-03

MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system. The expression of the mar operon is controlled by a repressor, MarR. A large number of compounds induce transcription of the mar operon. This is thought to be due to the compound binding to MarR, and the resulting complex stops MarR binding to the DNA. With the MarR repression lost, transcription of the operon proceeds. The structure of MarR is known and shows MarR as a dimer with each subunit containing a winged-helix DNA binding motif.


Pssm-ID: 432797 [Multi-domain]  Cd Length: 60  Bit Score: 35.64  E-value: 1.93e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 488395154  159 LTFLDFTLLSRVLskDKDALTLKDLIDSIRFMYPQVVRAINKLNEKDLLTKERFLADERI 218
Cdd:pfam12802   3 LTPAQFRVLLALA--RNPGLTVAELARRLGISKQTVSRLVKRLEAKGLVEREPSPADRRA 60
 
Name Accession Description Interval E-value
Staph_reg_Sar TIGR01889
staphylococcal accessory regulator family; This model represents a family of transcriptional ...
 12-117 5.61e-17

staphylococcal accessory regulator family; This model represents a family of transcriptional regulatory proteins in Staphylococcus aureus and Staphylococcus epidermidis. Some members contain two tandem copies of this region. This family is related to the MarR transcriptional regulator family described by pfam01047. [Regulatory functions, DNA interactions]


Pssm-ID: 130944  Cd Length: 109  Bit Score: 74.21  E-value: 5.61e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488395154   12 NRFIDIESYIYYLTRELKQKSEFSLKELLILAYI--FYKGENNISLKEIISDILCKQSEIVQIIKSLAKKEYIEKSRNTS 89
Cdd:TIGR01889   1 KDLLSLYLYIKSLKRYLKKEFNLSLEELLILYYLgkLENNEGKLTLKEIIKEILIKQSALVKIIKKLSKKGYLSKERSED 80

                          90       100
                  ....*....|....*....|....*...
gi 488395154   90 DERRIYISVNSIQQELISNKIKFLDNII 117
Cdd:TIGR01889  81 DERKVIISINKEQRSKIESLISEIEQII 108
Staph_reg_Sar TIGR01889
staphylococcal accessory regulator family; This model represents a family of transcriptional ...
 137-243 4.90e-14

staphylococcal accessory regulator family; This model represents a family of transcriptional regulatory proteins in Staphylococcus aureus and Staphylococcus epidermidis. Some members contain two tandem copies of this region. This family is related to the MarR transcriptional regulator family described by pfam01047. [Regulatory functions, DNA interactions]


Pssm-ID: 130944  Cd Length: 109  Bit Score: 66.12  E-value: 4.90e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488395154  137 KELFSLYIHLLYLKDYLKNQFKLTFLDFTLLSRV--LSKDKDALTLKDLIDSIRFMYPQVVRAINKLNEKDLLTKERFLA 214
Cdd:TIGR01889   1 KDLLSLYLYIKSLKRYLKKEFNLSLEELLILYYLgkLENNEGKLTLKEIIKEILIKQSALVKIIKKLSKKGYLSKERSED 80

                          90       100
                  ....*....|....*....|....*....
gi 488395154  215 DERIVLVRTNKKQLDFAINIIKDISKILN 243
Cdd:TIGR01889  81 DERKVIISINKEQRSKIESLISEIEQIIK 109
MarR COG1846
DNA-binding transcriptional regulator, MarR family [Transcription];
24-97 8.77e-04

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


Pssm-ID: 441451 [Multi-domain]  Cd Length: 142  Bit Score: 38.41  E-value: 8.77e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 488395154  24 LTRELKQ---KSEFSLKELLILAYIFYKGEnnISLKEIISDILCKQSEIVQIIKSLAKKEYIEKSRNTSDERRIYIS 97
Cdd:COG1846   23 LRRALDRalaELGLTPAQFRVLAALAEAGG--LTQSELAERLGLTKSTVSRLLDRLEEKGLVEREPDPEDRRAVLVR 97
MarR pfam01047
MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a ...
 34-94 1.00e-03

MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system. The expression of the mar operon is controlled by a repressor, MarR. A large number of compounds induce transcription of the mar operon. This is thought to be due to the compound binding to MarR, and the resulting complex stops MarR binding to the DNA. With the MarR repression lost, transcription of the operon proceeds. The structure of MarR is known and shows MarR as a dimer with each subunit containing a winged-helix DNA binding motif.


Pssm-ID: 426012 [Multi-domain]  Cd Length: 59  Bit Score: 36.37  E-value: 1.00e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 488395154   34 FSLKELLILAYIFYKGenNISLKEIISDILCKQSEIVQIIKSLAKKEYIEKSRNTSDERRI 94
Cdd:pfam01047   1 LTLTQFHILRILYEHG--PLTVSELAEKLGVSKSTVTRVLDRLEKKGLIERSRSPEDRREV 59
HTH_MARR smart00347
helix_turn_helix multiple antibiotic resistance protein;
30-97 1.08e-03

helix_turn_helix multiple antibiotic resistance protein;


Pssm-ID: 197670 [Multi-domain]  Cd Length: 101  Bit Score: 37.57  E-value: 1.08e-03
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 488395154    30 QKSEFSLKELLILAYIFYKGenNISLKEIISDILCKQSEIVQIIKSLAKKEYIEKSRNTSDERRIYIS 97
Cdd:smart00347   4 KPLGLTPTQFLVLRILYEEG--PLSVSELAKRLGVSPSTVTRVLDRLEKKGLVRREPSPEDRRSVLVS 69
MarR_2 pfam12802
MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a ...
 159-218 1.93e-03

MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system. The expression of the mar operon is controlled by a repressor, MarR. A large number of compounds induce transcription of the mar operon. This is thought to be due to the compound binding to MarR, and the resulting complex stops MarR binding to the DNA. With the MarR repression lost, transcription of the operon proceeds. The structure of MarR is known and shows MarR as a dimer with each subunit containing a winged-helix DNA binding motif.


Pssm-ID: 432797 [Multi-domain]  Cd Length: 60  Bit Score: 35.64  E-value: 1.93e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 488395154  159 LTFLDFTLLSRVLskDKDALTLKDLIDSIRFMYPQVVRAINKLNEKDLLTKERFLADERI 218
Cdd:pfam12802   3 LTPAQFRVLLALA--RNPGLTVAELARRLGISKQTVSRLVKRLEAKGLVEREPSPADRRA 60
MarR_2 pfam12802
MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a ...
 35-93 3.71e-03

MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system. The expression of the mar operon is controlled by a repressor, MarR. A large number of compounds induce transcription of the mar operon. This is thought to be due to the compound binding to MarR, and the resulting complex stops MarR binding to the DNA. With the MarR repression lost, transcription of the operon proceeds. The structure of MarR is known and shows MarR as a dimer with each subunit containing a winged-helix DNA binding motif.


Pssm-ID: 432797 [Multi-domain]  Cd Length: 60  Bit Score: 34.87  E-value: 3.71e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 488395154   35 SLKELLILAYIfyKGENNISLKEIISDILCKQSEIVQIIKSLAKKEYIEKSRNTSDERR 93
Cdd:pfam12802   4 TPAQFRVLLAL--ARNPGLTVAELARRLGISKQTVSRLVKRLEAKGLVEREPSPADRRA 60
 
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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