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Conserved domains on  [gi|503047536|ref|WP_013282512|]
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MULTISPECIES: radical SAM mobile pair system MarR family transcriptional regulator [Firmicutes]

Protein Classification

ROK family transcriptional regulator; ArsR family transcriptional regulator( domain architecture ID 10025245)

ROK (Repressor, ORF, Kinase) family transcriptional regulators are involved in carbohydrate-dependent transcriptional control; ArsR family transcriptional regulator containing an N-terminal ArsR family helix-turn-helix (HTH) DNA-binding domain and a C-terminal SAM-dependent methyltransferase domain, may function as a metalloregulatory transcriptional repressor

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
reg_rSAM_mob TIGR04472
mobile rSAM pair MarR family regulator; A number of human microbiome species from both the ...
 4-144 3.73e-91

mobile rSAM pair MarR family regulator; A number of human microbiome species from both the Firmicutes and the spirochete genus Treponema share a gene cassette encoding a pair of radical SAM enzymes and, in most cases, this MarR family transcriptional regulator as well. Sequence identity can exceed 96 percent, suggesting recent lateral transfer. These observations suggest the cassette confers resistance to a toxic compound such as an antibiotic.


:

Pssm-ID: 275265  Cd Length: 141  Bit Score: 260.59  E-value: 3.73e-91
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503047536    4 NGGFLVTKIKQLGDRIFERILAEKNIDAFNGAQGRILYVLWQEDGVPIKIISEKSGLAITSLTTMLERMEKNGLISRKTD 83
Cdd:TIGR04472   1 NGGFLVTKIKQLGDRIFEKILSEKNIDAFNGAQGRILYVLWQEDGIPIKSLSEKCGLAITSLTTMLERMENQGLISRVQD 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 503047536   84 EADKRKTLLFLTDKAKELKEAYDSVSNEMGNIYYRDFTDKEILQFEEYLNRIRVNLEEWSD 144
Cdd:TIGR04472  81 ETDKRKTLLFLTEKAHSLKDEYDSVSDEMGSIYYKGFSEKEITQFEEYLERIRKNLEEWQE 141
 
Name Accession Description Interval E-value
reg_rSAM_mob TIGR04472
mobile rSAM pair MarR family regulator; A number of human microbiome species from both the ...
 4-144 3.73e-91

mobile rSAM pair MarR family regulator; A number of human microbiome species from both the Firmicutes and the spirochete genus Treponema share a gene cassette encoding a pair of radical SAM enzymes and, in most cases, this MarR family transcriptional regulator as well. Sequence identity can exceed 96 percent, suggesting recent lateral transfer. These observations suggest the cassette confers resistance to a toxic compound such as an antibiotic.


Pssm-ID: 275265  Cd Length: 141  Bit Score: 260.59  E-value: 3.73e-91
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503047536    4 NGGFLVTKIKQLGDRIFERILAEKNIDAFNGAQGRILYVLWQEDGVPIKIISEKSGLAITSLTTMLERMEKNGLISRKTD 83
Cdd:TIGR04472   1 NGGFLVTKIKQLGDRIFEKILSEKNIDAFNGAQGRILYVLWQEDGIPIKSLSEKCGLAITSLTTMLERMENQGLISRVQD 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 503047536   84 EADKRKTLLFLTDKAKELKEAYDSVSNEMGNIYYRDFTDKEILQFEEYLNRIRVNLEEWSD 144
Cdd:TIGR04472  81 ETDKRKTLLFLTEKAHSLKDEYDSVSDEMGSIYYKGFSEKEITQFEEYLERIRKNLEEWQE 141
MarR COG1846
DNA-binding transcriptional regulator, MarR family [Transcription];
6-136 1.20e-24

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


Pssm-ID: 441451 [Multi-domain]  Cd Length: 142  Bit Score: 91.96  E-value: 1.20e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503047536   6 GFLVTKIKQLGDRIFERILAEKNIdafNGAQGRILYVLWQEDGVPIKIISEKSGLAITSLTTMLERMEKNGLISRKTDEA 85
Cdd:COG1846   13 GLLLRRLARALRRALDRALAELGL---TPAQFRVLAALAEAGGLTQSELAERLGLTKSTVSRLLDRLEEKGLVEREPDPE 89

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 503047536  86 DKRKTLLFLTDKAKELKEAYDSVSNEMGNIYYRDFTDKEILQFEEYLNRIR 136
Cdd:COG1846   90 DRRAVLVRLTEKGRALLEEARPALEALLAELLAGLSEEELEALLRLLRRLA 140
HTH_MARR smart00347
helix_turn_helix multiple antibiotic resistance protein;
22-125 5.17e-18

helix_turn_helix multiple antibiotic resistance protein;


Pssm-ID: 197670 [Multi-domain]  Cd Length: 101  Bit Score: 73.78  E-value: 5.17e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503047536    22 RILAEKNIdafNGAQGRILYVLWQEDGVPIKIISEKSGLAITSLTTMLERMEKNGLISRKTDEADKRKTLLFLTDKAKEL 101
Cdd:smart00347   1 EELKPLGL---TPTQFLVLRILYEEGPLSVSELAKRLGVSPSTVTRVLDRLEKKGLVRREPSPEDRRSVLVSLTEEGREL 77

                           90       100
                   ....*....|....*....|....
gi 503047536   102 KEAYDSVSNEMGNIYYRDFTDKEI 125
Cdd:smart00347  78 IEQLLEARSETLAELLAGLTAEEQ 101
MarR pfam01047
MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a ...
 35-90 1.70e-10

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: 53.32  E-value: 1.70e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 503047536   35 AQGRILYVLWQEDGVPIKIISEKSGLAITSLTTMLERMEKNGLISRKTDEADKRKT 90
Cdd:pfam01047   4 TQFHILRILYEHGPLTVSELAEKLGVSKSTVTRVLDRLEKKGLIERSRSPEDRREV 59
PRK11512 PRK11512
multiple antibiotic resistance transcriptional regulator MarR;
6-135 8.22e-04

multiple antibiotic resistance transcriptional regulator MarR;


Pssm-ID: 183170  Cd Length: 144  Bit Score: 37.18  E-value: 8.22e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503047536   6 GFLVTKIKQLGDRIFERILAEKNIDAfngAQGRILYVLWQEdgVPIKIISEKSGLAIT--SLTTMLERMEKNGLISRKTD 83
Cdd:PRK11512  15 GRLIHMVNQKKDRLLNEYLSPLDITA---AQFKVLCSIRCA--ACITPVELKKVLSVDlgALTRMLDRLVCKGWVERLPN 89

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 503047536  84 EADKRKTLLFLT-DKAKELKEAYDSVSNEMGNIYYRDFTDKEILQFEEYLNRI 135
Cdd:PRK11512  90 PNDKRGVLVKLTtSGAAICEQCHQLVGQDLHQELTKNLTADEVATLEHLLKKV 142
 
Name Accession Description Interval E-value
reg_rSAM_mob TIGR04472
mobile rSAM pair MarR family regulator; A number of human microbiome species from both the ...
 4-144 3.73e-91

mobile rSAM pair MarR family regulator; A number of human microbiome species from both the Firmicutes and the spirochete genus Treponema share a gene cassette encoding a pair of radical SAM enzymes and, in most cases, this MarR family transcriptional regulator as well. Sequence identity can exceed 96 percent, suggesting recent lateral transfer. These observations suggest the cassette confers resistance to a toxic compound such as an antibiotic.


Pssm-ID: 275265  Cd Length: 141  Bit Score: 260.59  E-value: 3.73e-91
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503047536    4 NGGFLVTKIKQLGDRIFERILAEKNIDAFNGAQGRILYVLWQEDGVPIKIISEKSGLAITSLTTMLERMEKNGLISRKTD 83
Cdd:TIGR04472   1 NGGFLVTKIKQLGDRIFEKILSEKNIDAFNGAQGRILYVLWQEDGIPIKSLSEKCGLAITSLTTMLERMENQGLISRVQD 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 503047536   84 EADKRKTLLFLTDKAKELKEAYDSVSNEMGNIYYRDFTDKEILQFEEYLNRIRVNLEEWSD 144
Cdd:TIGR04472  81 ETDKRKTLLFLTEKAHSLKDEYDSVSDEMGSIYYKGFSEKEITQFEEYLERIRKNLEEWQE 141
MarR COG1846
DNA-binding transcriptional regulator, MarR family [Transcription];
6-136 1.20e-24

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


Pssm-ID: 441451 [Multi-domain]  Cd Length: 142  Bit Score: 91.96  E-value: 1.20e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503047536   6 GFLVTKIKQLGDRIFERILAEKNIdafNGAQGRILYVLWQEDGVPIKIISEKSGLAITSLTTMLERMEKNGLISRKTDEA 85
Cdd:COG1846   13 GLLLRRLARALRRALDRALAELGL---TPAQFRVLAALAEAGGLTQSELAERLGLTKSTVSRLLDRLEEKGLVEREPDPE 89

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 503047536  86 DKRKTLLFLTDKAKELKEAYDSVSNEMGNIYYRDFTDKEILQFEEYLNRIR 136
Cdd:COG1846   90 DRRAVLVRLTEKGRALLEEARPALEALLAELLAGLSEEELEALLRLLRRLA 140
HTH_MARR smart00347
helix_turn_helix multiple antibiotic resistance protein;
22-125 5.17e-18

helix_turn_helix multiple antibiotic resistance protein;


Pssm-ID: 197670 [Multi-domain]  Cd Length: 101  Bit Score: 73.78  E-value: 5.17e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503047536    22 RILAEKNIdafNGAQGRILYVLWQEDGVPIKIISEKSGLAITSLTTMLERMEKNGLISRKTDEADKRKTLLFLTDKAKEL 101
Cdd:smart00347   1 EELKPLGL---TPTQFLVLRILYEEGPLSVSELAKRLGVSPSTVTRVLDRLEKKGLVRREPSPEDRRSVLVSLTEEGREL 77

                           90       100
                   ....*....|....*....|....
gi 503047536   102 KEAYDSVSNEMGNIYYRDFTDKEI 125
Cdd:smart00347  78 IEQLLEARSETLAELLAGLTAEEQ 101
MarR pfam01047
MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a ...
 35-90 1.70e-10

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: 53.32  E-value: 1.70e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 503047536   35 AQGRILYVLWQEDGVPIKIISEKSGLAITSLTTMLERMEKNGLISRKTDEADKRKT 90
Cdd:pfam01047   4 TQFHILRILYEHGPLTVSELAEKLGVSKSTVTRVLDRLEKKGLIERSRSPEDRREV 59
HpaR TIGR02337
homoprotocatechuate degradation operon regulator, HpaR; This Helix-Turn-Helix transcriptional ...
 20-116 2.74e-09

homoprotocatechuate degradation operon regulator, HpaR; This Helix-Turn-Helix transcriptional regulator is a member of the MarR family (pfam01047) and is found in association with operons for the degradation of 4-hydroxyphenylacetic acid via homoprotocatechuate.


Pssm-ID: 188209 [Multi-domain]  Cd Length: 118  Bit Score: 51.61  E-value: 2.74e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503047536   20 FERILAEKNIDAfngAQGRILYVLWQEDGVPIKIISEKSGLAITSLTTMLERMEKNGLISRKTDEADKRKTLLFLTDKAK 99
Cdd:TIGR02337  17 FRPILAQHGLTE---QQWRILRILAEQGSMEFTQLANQACILRPSLTGILARLERDGLVTRLKASNDQRRVYISLTPKGQ 93

                          90
                  ....*....|....*..
gi 503047536  100 ELkeaYDSVSNEMGNIY 116
Cdd:TIGR02337  94 AL---YASLSPQIEEIY 107
MarR_2 pfam12802
MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a ...
 33-88 2.42e-07

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: 44.89  E-value: 2.42e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 503047536   33 NGAQGRILYVLWQEDGVPIKIISEKSGLAITSLTTMLERMEKNGLISRKTDEADKR 88
Cdd:pfam12802   4 TPAQFRVLLALARNPGLTVAELARRLGISKQTVSRLVKRLEAKGLVEREPSPADRR 59
HTH_24 pfam13412
Winged helix-turn-helix DNA-binding;
38-78 3.83e-04

Winged helix-turn-helix DNA-binding;


Pssm-ID: 404317 [Multi-domain]  Cd Length: 45  Bit Score: 36.26  E-value: 3.83e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 503047536   38 RILYVLWQEDGVPIKIISEKSGLAITSLTTMLERMEKNGLI 78
Cdd:pfam13412   5 KILNLLQENPRISQRELAERLGLSPSTVNRRLKRLEEEGVI 45
PRK11512 PRK11512
multiple antibiotic resistance transcriptional regulator MarR;
6-135 8.22e-04

multiple antibiotic resistance transcriptional regulator MarR;


Pssm-ID: 183170  Cd Length: 144  Bit Score: 37.18  E-value: 8.22e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503047536   6 GFLVTKIKQLGDRIFERILAEKNIDAfngAQGRILYVLWQEdgVPIKIISEKSGLAIT--SLTTMLERMEKNGLISRKTD 83
Cdd:PRK11512  15 GRLIHMVNQKKDRLLNEYLSPLDITA---AQFKVLCSIRCA--ACITPVELKKVLSVDlgALTRMLDRLVCKGWVERLPN 89

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 503047536  84 EADKRKTLLFLT-DKAKELKEAYDSVSNEMGNIYYRDFTDKEILQFEEYLNRI 135
Cdd:PRK11512  90 PNDKRGVLVKLTtSGAAICEQCHQLVGQDLHQELTKNLTADEVATLEHLLKKV 142
HTH_27 pfam13463
Winged helix DNA-binding domain;
39-98 3.62e-03

Winged helix DNA-binding domain;


Pssm-ID: 433228 [Multi-domain]  Cd Length: 68  Bit Score: 34.19  E-value: 3.62e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 503047536   39 ILYVL-WQEDGVPIKIISEKSGLAITSLTTMLERMEKNGLISRKTDEADKRKTLLFLTDKA 98
Cdd:pfam13463   8 ILHNIgHRGDPKTLADICFRLNVEDSHVSYSLKKLTEAGLVEREGSEEDGRETRVRLTAKG 68
CopY COG3682
Transcriptional regulator, CopY/TcrY family [Transcription];
38-83 3.67e-03

Transcriptional regulator, CopY/TcrY family [Transcription];


Pssm-ID: 442898  Cd Length: 125  Bit Score: 35.15  E-value: 3.67e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 503047536  38 RILYVLWQEDGVPIK----IISEKSGLAITSLTTMLERMEKNGLISRKTD 83
Cdd:COG3682   11 EVMQVLWELGPATVRevleALPEERGWAYTTVLTLLRRLEEKGFLSREKE 60
PRK03573 PRK03573
transcriptional regulator SlyA; Provisional
 64-145 4.38e-03

transcriptional regulator SlyA; Provisional


Pssm-ID: 179596  Cd Length: 144  Bit Score: 35.37  E-value: 4.38e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503047536  64 SLTTMLERMEKNGLISRKTDEADKRKTLLFLTDKAKELKEAYDSVSNEMGNIYYRDFTDKEILQFEEYLNRIRVNLEEWS 143
Cdd:PRK03573  62 SLVRTLDQLEEKGLISRQTCASDRRAKRIKLTEKAEPLISEVEAVINKTRAEILHGISAEEIEQLITLIAKLEKNIIELQ 141


                 ..
gi 503047536 144 DK 145
Cdd:PRK03573 142 SK 143
PRK10857 PRK10857
Fe-S cluster assembly transcriptional regulator IscR;
45-79 8.17e-03

Fe-S cluster assembly transcriptional regulator IscR;


Pssm-ID: 236777  Cd Length: 164  Bit Score: 34.86  E-value: 8.17e-03
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 503047536  45 QEDGVPIKIISEKSGLAITSLTTMLERMEKNGLIS 79
Cdd:PRK10857  22 EAGPVPLADISERQGISLSYLEQLFSRLRKNGLVS 56
 
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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