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Conserved domains on  [gi|488990955|ref|WP_002901718|]
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MULTISPECIES: MarR family winged helix-turn-helix transcriptional regulator [Klebsiella]

Protein Classification

MarR family winged helix-turn-helix transcriptional regulator( domain architecture ID 11448790)

MarR family winged helix-turn-helix (wHTH) transcriptional regulator similar to Bacillus thuringiensis DNA-binding transcriptional repressor TubR, a DNA-binding protein that is part of the type III plasmid partition system used to ensure correct segregation of the pBtoxis plasmid

Gene Ontology:  GO:0006355|GO:0003700
PubMed:  10498949|28670937
SCOP:  4000246

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
MarR COG1846
DNA-binding transcriptional regulator, MarR family [Transcription];
3-147 4.69e-24

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


:

Pssm-ID: 441451 [Multi-domain]  Cd Length: 142  Bit Score: 90.80  E-value: 4.69e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488990955   3 DAHNDYDITDFHGALLDIISVMNQPLRdeQILQAAGIQLEQmlFPLLVAVGRHGPVGVVELADHLGRDYTTVSRQVKKLE 82
Cdd:COG1846    2 SDEPDPAEERLGLLLRRLARALRRALD--RALAELGLTPAQ--FRVLAALAEAGGLTQSELAERLGLTKSTVSRLLDRLE 77

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 488990955  83 AQGLACKQPNRHDRRISEVTLSASGQQMIDSIAVARRRLMNQVLAQWPEDEVQALFRLTRKYADS 147
Cdd:COG1846   78 EKGLVEREPDPEDRRAVLVRLTEKGRALLEEARPALEALLAELLAGLSEEELEALLRLLRRLAEN 142
 
Name Accession Description Interval E-value
MarR COG1846
DNA-binding transcriptional regulator, MarR family [Transcription];
3-147 4.69e-24

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


Pssm-ID: 441451 [Multi-domain]  Cd Length: 142  Bit Score: 90.80  E-value: 4.69e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488990955   3 DAHNDYDITDFHGALLDIISVMNQPLRdeQILQAAGIQLEQmlFPLLVAVGRHGPVGVVELADHLGRDYTTVSRQVKKLE 82
Cdd:COG1846    2 SDEPDPAEERLGLLLRRLARALRRALD--RALAELGLTPAQ--FRVLAALAEAGGLTQSELAERLGLTKSTVSRLLDRLE 77

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 488990955  83 AQGLACKQPNRHDRRISEVTLSASGQQMIDSIAVARRRLMNQVLAQWPEDEVQALFRLTRKYADS 147
Cdd:COG1846   78 EKGLVEREPDPEDRRAVLVRLTEKGRALLEEARPALEALLAELLAGLSEEELEALLRLLRRLAEN 142
HTH_MARR smart00347
helix_turn_helix multiple antibiotic resistance protein;
32-134 1.08e-15

helix_turn_helix multiple antibiotic resistance protein;


Pssm-ID: 197670 [Multi-domain]  Cd Length: 101  Bit Score: 68.00  E-value: 1.08e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488990955    32 QILQAAGIQLEQMLfpLLVAVGRHGPVGVVELADHLGRDYTTVSRQVKKLEAQGLACKQPNRHDRRISEVTLSASGQQMI 111
Cdd:smart00347   1 EELKPLGLTPTQFL--VLRILYEEGPLSVSELAKRLGVSPSTVTRVLDRLEKKGLVRREPSPEDRRSVLVSLTEEGRELI 78

                           90       100
                   ....*....|....*....|...
gi 488990955   112 DSIAVARRRLMNQVLAQWPEDEV 134
Cdd:smart00347  79 EQLLEARSETLAELLAGLTAEEQ 101
MarR_2 pfam12802
MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a ...
 38-98 2.06e-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: 432797 [Multi-domain]  Cd Length: 60  Bit Score: 53.36  E-value: 2.06e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 488990955   38 GIQLEQmlFPLLVAVGRHGPVGVVELADHLGRDYTTVSRQVKKLEAQGLACKQPNRHDRRI 98
Cdd:pfam12802   2 GLTPAQ--FRVLLALARNPGLTVAELARRLGISKQTVSRLVKRLEAKGLVEREPSPADRRA 60
HTH_ARSR cd00090
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 54-86 5.36e-05

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: 39.59  E-value: 5.36e-05
                         10        20        30
                 ....*....|....*....|....*....|...
gi 488990955  54 RHGPVGVVELADHLGRDYTTVSRQVKKLEAQGL 86
Cdd:cd00090   17 LEGPLTVSELAERLGLSQSTVSRHLKKLEEAGL 49
cas_HTH TIGR01884
CRISPR locus-related DNA-binding protein; Most but not all examples of this family are ...
 27-99 1.26e-04

CRISPR locus-related DNA-binding protein; Most but not all examples of this family are associated with CRISPR loci, a combination of DNA repeats and characteristic proteins encoded near the repeat cluster. The C-terminal region of this protein is homologous to DNA-binding helix-turn-helix domains with predicted transcriptional regulatory activity. [Regulatory functions, DNA interactions, , ]


Pssm-ID: 273852 [Multi-domain]  Cd Length: 203  Bit Score: 40.42  E-value: 1.26e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488990955   27 PLRDEQILQAAGIQLEQMLFPL-------LVAVGRHGPVGVVELADHLGRDYTTVSRQVKKLEAQGLAcKQPNRHDRRIS 99
Cdd:TIGR01884 120 YYESEELISFIDLDLVPLLAGLsreelkiLEVLKATGEKSVKNIAKKLGKSLSTISRHLAELEKKGLV-EQKGRKGKRYS 198
 
Name Accession Description Interval E-value
MarR COG1846
DNA-binding transcriptional regulator, MarR family [Transcription];
3-147 4.69e-24

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


Pssm-ID: 441451 [Multi-domain]  Cd Length: 142  Bit Score: 90.80  E-value: 4.69e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488990955   3 DAHNDYDITDFHGALLDIISVMNQPLRdeQILQAAGIQLEQmlFPLLVAVGRHGPVGVVELADHLGRDYTTVSRQVKKLE 82
Cdd:COG1846    2 SDEPDPAEERLGLLLRRLARALRRALD--RALAELGLTPAQ--FRVLAALAEAGGLTQSELAERLGLTKSTVSRLLDRLE 77

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 488990955  83 AQGLACKQPNRHDRRISEVTLSASGQQMIDSIAVARRRLMNQVLAQWPEDEVQALFRLTRKYADS 147
Cdd:COG1846   78 EKGLVEREPDPEDRRAVLVRLTEKGRALLEEARPALEALLAELLAGLSEEELEALLRLLRRLAEN 142
HTH_MARR smart00347
helix_turn_helix multiple antibiotic resistance protein;
32-134 1.08e-15

helix_turn_helix multiple antibiotic resistance protein;


Pssm-ID: 197670 [Multi-domain]  Cd Length: 101  Bit Score: 68.00  E-value: 1.08e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488990955    32 QILQAAGIQLEQMLfpLLVAVGRHGPVGVVELADHLGRDYTTVSRQVKKLEAQGLACKQPNRHDRRISEVTLSASGQQMI 111
Cdd:smart00347   1 EELKPLGLTPTQFL--VLRILYEEGPLSVSELAKRLGVSPSTVTRVLDRLEKKGLVRREPSPEDRRSVLVSLTEEGRELI 78

                           90       100
                   ....*....|....*....|...
gi 488990955   112 DSIAVARRRLMNQVLAQWPEDEV 134
Cdd:smart00347  79 EQLLEARSETLAELLAGLTAEEQ 101
MarR_2 pfam12802
MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a ...
 38-98 2.06e-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: 432797 [Multi-domain]  Cd Length: 60  Bit Score: 53.36  E-value: 2.06e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 488990955   38 GIQLEQmlFPLLVAVGRHGPVGVVELADHLGRDYTTVSRQVKKLEAQGLACKQPNRHDRRI 98
Cdd:pfam12802   2 GLTPAQ--FRVLLALARNPGLTVAELARRLGISKQTVSRLVKRLEAKGLVEREPSPADRRA 60
MarR pfam01047
MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a ...
 46-98 8.00e-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: 426012 [Multi-domain]  Cd Length: 59  Bit Score: 43.69  E-value: 8.00e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 488990955   46 FPLLVAVGRHGPVGVVELADHLGRDYTTVSRQVKKLEAQGLACKQPNRHDRRI 98
Cdd:pfam01047   6 FHILRILYEHGPLTVSELAEKLGVSKSTVTRVLDRLEKKGLIERSRSPEDRRE 58
MntR COG1321
Mn-dependent transcriptional regulator MntR, DtxR family [Transcription];
54-121 3.70e-06

Mn-dependent transcriptional regulator MntR, DtxR family [Transcription];


Pssm-ID: 440932 [Multi-domain]  Cd Length: 135  Bit Score: 43.65  E-value: 3.70e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 488990955  54 RHGPVGVVELADHLGRDYTTVSRQVKKLEAQGLACKQPNRHdrriseVTLSASGQQMIDSIaVARRRL 121
Cdd:COG1321   21 EGGPVRTSDIAERLGVSPPSVTEMLKKLEEKGLVEYEPYGG------ITLTEEGRELALRI-VRRHRL 81
COG4190 COG4190
Predicted transcriptional regulator, contains HTH domain [Transcription];
48-86 1.07e-05

Predicted transcriptional regulator, contains HTH domain [Transcription];


Pssm-ID: 443344  Cd Length: 121  Bit Score: 42.19  E-value: 1.07e-05
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 488990955  48 LLVAVGRHGPVGVVELADHLGRDYTTVSRQVKKLEAQGL 86
Cdd:COG4190   57 LLRAIAEEGPESIRELARRLGRDVKNVHRDLKTLEELGL 95
HTH_ARSR cd00090
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 54-86 5.36e-05

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: 39.59  E-value: 5.36e-05
                         10        20        30
                 ....*....|....*....|....*....|...
gi 488990955  54 RHGPVGVVELADHLGRDYTTVSRQVKKLEAQGL 86
Cdd:cd00090   17 LEGPLTVSELAERLGLSQSTVSRHLKKLEEAGL 49
HTH_27 pfam13463
Winged helix DNA-binding domain;
53-107 1.12e-04

Winged helix DNA-binding domain;


Pssm-ID: 433228 [Multi-domain]  Cd Length: 68  Bit Score: 38.42  E-value: 1.12e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 488990955   53 GRHGPVGVVELADHLGRDYTTVSRQVKKLEAQGLACKQPNRHDRRISEVTLSASG 107
Cdd:pfam13463  14 HRGDPKTLADICFRLNVEDSHVSYSLKKLTEAGLVEREGSEEDGRETRVRLTAKG 68
cas_HTH TIGR01884
CRISPR locus-related DNA-binding protein; Most but not all examples of this family are ...
 27-99 1.26e-04

CRISPR locus-related DNA-binding protein; Most but not all examples of this family are associated with CRISPR loci, a combination of DNA repeats and characteristic proteins encoded near the repeat cluster. The C-terminal region of this protein is homologous to DNA-binding helix-turn-helix domains with predicted transcriptional regulatory activity. [Regulatory functions, DNA interactions, , ]


Pssm-ID: 273852 [Multi-domain]  Cd Length: 203  Bit Score: 40.42  E-value: 1.26e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488990955   27 PLRDEQILQAAGIQLEQMLFPL-------LVAVGRHGPVGVVELADHLGRDYTTVSRQVKKLEAQGLAcKQPNRHDRRIS 99
Cdd:TIGR01884 120 YYESEELISFIDLDLVPLLAGLsreelkiLEVLKATGEKSVKNIAKKLGKSLSTISRHLAELEKKGLV-EQKGRKGKRYS 198
HTH_ARSR smart00418
helix_turn_helix, Arsenical Resistance Operon Repressor;
54-86 4.86e-04

helix_turn_helix, Arsenical Resistance Operon Repressor;


Pssm-ID: 197713 [Multi-domain]  Cd Length: 66  Bit Score: 36.42  E-value: 4.86e-04
                           10        20        30
                   ....*....|....*....|....*....|...
gi 488990955    54 RHGPVGVVELADHLGRDYTTVSRQVKKLEAQGL 86
Cdd:smart00418   7 AEGELCVCELAEILGLSQSTVSHHLKKLREAGL 39
COG2345 COG2345
Predicted transcriptional regulator, ArsR family [Transcription];
48-96 8.33e-04

Predicted transcriptional regulator, ArsR family [Transcription];


Pssm-ID: 441914 [Multi-domain]  Cd Length: 217  Bit Score: 37.98  E-value: 8.33e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 488990955  48 LLVAVGRHGPVGVVELADHLGRDYTTVSRQVKKLEAQGLACKQPNRHDR 96
Cdd:COG2345   18 ILELLKRAGPVTAAELAEALGLTPNAVRRHLDALEEEGLVERETERRGR 66
TrmB pfam01978
Sugar-specific transcriptional regulator TrmB; One member of this family, TrmB, has been shown ...
 34-93 2.16e-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: 34.80  E-value: 2.16e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 488990955   34 LQAAGI-QLEQMLFPLLVAvgrHGPVGVVELADHLGRDYTTVSRQVKKLEAQGLACKQPNR 93
Cdd:pfam01978   1 LQKLGLsEYEAKVYLALLK---LGPATADEIAEESGVPRSKVYEVLRSLEDKGLVEREKGR 58
COG3398 COG3398
Predicted transcriptional regulator, contains two HTH domains [Transcription];
48-104 3.83e-03

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


Pssm-ID: 442625 [Multi-domain]  Cd Length: 159  Bit Score: 35.62  E-value: 3.83e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 488990955  48 LLVAVGRHGPVGVVELADHLGRDYTTVSRQVKKLEAQGLACKqpnRHDRRISEVTLS 104
Cdd:COG3398  102 ILLYLLENPGATNKELAEELGISRSTVSWHLKRLEEDGLVER---ERDGRNVRYYLN 155
HTH_1 pfam00126
Bacterial regulatory helix-turn-helix protein, lysR family;
48-108 7.53e-03

Bacterial regulatory helix-turn-helix protein, lysR family;


Pssm-ID: 459683 [Multi-domain]  Cd Length: 60  Bit Score: 33.13  E-value: 7.53e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 488990955   48 LLVAVGRHGpvGVVELADHLGRDYTTVSRQVKKLEAQgLACKQPNRHDRRiseVTLSASGQ 108
Cdd:pfam00126   6 LFVAVAETG--SFTAAAERLGLSQPAVSRQIKRLEEE-LGVPLFERTTRG---VRLTEAGE 60
CasRa_I-A cd09655
CRISPR/Cas system-associated transcriptional regulator CasRa; CRISPR (Clustered Regularly ...
 36-99 8.46e-03

CRISPR/Cas system-associated transcriptional regulator CasRa; CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Predicted transcriptional regulator of CRISPR/Cas system


Pssm-ID: 187786 [Multi-domain]  Cd Length: 198  Bit Score: 35.05  E-value: 8.46e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 488990955  36 AAGIQLEQMLfpLLVAVGRHGPVGVVELADHLGRDYTTVSRQVKKLEAQGLAcKQPNRHDRRIS 99
Cdd:cd09655  134 LAGLSREELK--ILEVLKAKGEKSVKNIAKKLGKSLSTISRHLRELEKKGLV-EQKGTKGKRYS 194
 
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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