NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|485661653|ref|WP_001303241|]
View 

MULTISPECIES: MDR efflux pump AcrAB transcriptional activator MarA [Enterobacteriaceae]

Protein Classification

AraC family transcriptional regulator( domain architecture ID 11485375)

AraC family transcriptional regulator controls the expression of genes with diverse biological functions including metabolism, stress response, and virulence

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
1-126 1.73e-85

MDR efflux pump AcrAB transcriptional activator MarA;


:

Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 245.01  E-value: 1.73e-85
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485661653   1 MSRRNTDAITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKLTEIAQKLKESNEPILYL 80
Cdd:PRK11511   1 MSRRNTDAITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYL 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 485661653  81 AERYGFESQQTLTRTFKNYFDVPPHKYRITSMPGESRYLYPLKHCS 126
Cdd:PRK11511  81 AERYGFESQQTLTRTFKNYFDVPPHKYRMTNMQGESRFLHPLNHYN 126
 
Name Accession Description Interval E-value
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
1-126 1.73e-85

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 245.01  E-value: 1.73e-85
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485661653   1 MSRRNTDAITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKLTEIAQKLKESNEPILYL 80
Cdd:PRK11511   1 MSRRNTDAITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYL 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 485661653  81 AERYGFESQQTLTRTFKNYFDVPPHKYRITSMPGESRYLYPLKHCS 126
Cdd:PRK11511  81 AERYGFESQQTLTRTFKNYFDVPPHKYRMTNMQGESRFLHPLNHYN 126
MarA_TF NF012198
MDR efflux pump AcrAB transcriptional activator MarA;
1-124 2.53e-80

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 411088  Cd Length: 124  Bit Score: 231.95  E-value: 2.53e-80
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485661653   1 MSRRNTDAITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKLTEIAQKLKESNEPILYL 80
Cdd:NF012198   1 MSRRNTDAITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYL 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 485661653  81 AERYGFESQQTLTRTFKNYFDVPPHKYRITSMPGESRYLYPLKH 124
Cdd:NF012198  81 AERYGFESQQTLTRTFKNYFDVPPHKYRITNMPGESRYLHPLNH 124
RobA_TF NF012228
MDR efflux pump AcrAB transcriptional activator RobA; The original characterization of RobA as ...
 11-108 1.25e-41

MDR efflux pump AcrAB transcriptional activator RobA; The original characterization of RobA as a Right side Origin of replication Binding protein A (robA) may be misleading. Characterizations in large numbers of papers since then treat RobA as a transcriptional activator of the AcrAB antibiotic efflux pump.


Pssm-ID: 467958 [Multi-domain]  Cd Length: 286  Bit Score: 138.88  E-value: 1.25e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485661653  11 IHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKLTEIAQKLKESNEPILYLAERYGFESQQ 90
Cdd:NF012228   5 IRDLLVWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGQAIGAYIRARRLSKAAVALRLTSRPILDIALQYRFDSQQ 84

                         90
                 ....*....|....*...
gi 485661653  91 TLTRTFKNYFDVPPHKYR 108
Cdd:NF012228  85 TFTRAFKKQFNQTPALYR 102
ramA_TF NF012144
RamA family antibiotic efflux transcriptional regulator;
8-108 7.15e-36

RamA family antibiotic efflux transcriptional regulator;


Pssm-ID: 411085 [Multi-domain]  Cd Length: 108  Bit Score: 118.66  E-value: 7.15e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485661653   8 AITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKLTEIAQKLKESNEPILYLAERYGFE 87
Cdd:NF012144   4 AQVIDTIVEWIDDNLHQPLRIDDIARHAGYSKWHLQRLFLQYKGESLGRYIRERKLLLAARDLRDTDQKVYDICLKYGFD 83

                         90       100
                 ....*....|....*....|.
gi 485661653  88 SQQTLTRTFKNYFDVPPHKYR 108
Cdd:NF012144  84 SQQTFTRIFTRTFNQPPGAYR 104
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
25-108 1.80e-29

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 101.86  E-value: 1.80e-29
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485661653    25 PLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKLTEIAQKLKESNEPILYLAERYGFESQQTLTRTFKNYFDVPP 104
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 485661653   105 HKYR 108
Cdd:smart00342  81 SEYR 84
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 3-108 5.54e-24

Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH domain [Transcription];


Pssm-ID: 444002 [Multi-domain]  Cd Length: 318  Bit Score: 93.68  E-value: 5.54e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485661653   3 RRNTDAITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKLtEIAQK-LKESNEPILYLA 81
Cdd:COG4977  204 PLGHRDPRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRL-ERARRlLETTDLSIEEIA 282

                         90       100
                 ....*....|....*....|....*..
gi 485661653  82 ERYGFESQQTLTRTFKNYFDVPPHKYR 108
Cdd:COG4977  283 AACGFGSASHFRRAFRRRFGVSPSAYR 309
HTH_18 pfam12833
Helix-turn-helix domain;
31-108 3.14e-17

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 70.31  E-value: 3.14e-17
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 485661653   31 VSERSGYSKWHLQRMFKKETGHSLGQYIRSRKLTEIAQKL-KESNEPILYLAERYGFESQQTLTRTFKNYFDVPPHKYR 108
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLlEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYR 79
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 10-108 5.76e-11

YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only one protein with the YSIRK variant form of signal peptide (TIGR01168) were examined for conserved genes near that one tagged protein. This protein is found adjacent to at various classes of repetitive or low-complexity YSIRK proteins (whether unique in genome or not), in a range of species (Enterococcus faecalis X98, Ruminococcus torques, Coprobacillus sp. D7, Lysinibacillus fusiformis ZC1, Streptococcus equi subsp. equi 4047, etc). The affliated YSIRK proteins include Streptococcal protective antigen (see ) and proteins with the Rib/alpha/Esp surface antigen repeat (see TIGR02331). The last quarter of this protein has an AraC family helix-turn-helix (HTH)transcriptional regulator domain.


Pssm-ID: 274977 [Multi-domain]  Cd Length: 383  Bit Score: 58.15  E-value: 5.76e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485661653   10 TIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKLTEiAQKLKESNEPILYLAERYGFESQ 89
Cdd:TIGR04094 286 LIRAVIQYINLNLYDPLKVEEIAKQFFMSESKLRKLFKKEMGISIQEYISKRKIEE-AKYLLRSQIPVSEVSNELGFYDL 364

                          90
                  ....*....|....*....
gi 485661653   90 QTLTRTFKNYFDVPPHKYR 108
Cdd:TIGR04094 365 SHFSRTFKKHTGVSPKQYQ 383
 
Name Accession Description Interval E-value
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
1-126 1.73e-85

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 245.01  E-value: 1.73e-85
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485661653   1 MSRRNTDAITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKLTEIAQKLKESNEPILYL 80
Cdd:PRK11511   1 MSRRNTDAITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYL 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 485661653  81 AERYGFESQQTLTRTFKNYFDVPPHKYRITSMPGESRYLYPLKHCS 126
Cdd:PRK11511  81 AERYGFESQQTLTRTFKNYFDVPPHKYRMTNMQGESRFLHPLNHYN 126
MarA_TF NF012198
MDR efflux pump AcrAB transcriptional activator MarA;
1-124 2.53e-80

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 411088  Cd Length: 124  Bit Score: 231.95  E-value: 2.53e-80
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485661653   1 MSRRNTDAITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKLTEIAQKLKESNEPILYL 80
Cdd:NF012198   1 MSRRNTDAITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYL 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 485661653  81 AERYGFESQQTLTRTFKNYFDVPPHKYRITSMPGESRYLYPLKH 124
Cdd:NF012198  81 AERYGFESQQTLTRTFKNYFDVPPHKYRITNMPGESRYLHPLNH 124
RobA_TF NF012228
MDR efflux pump AcrAB transcriptional activator RobA; The original characterization of RobA as ...
 11-108 1.25e-41

MDR efflux pump AcrAB transcriptional activator RobA; The original characterization of RobA as a Right side Origin of replication Binding protein A (robA) may be misleading. Characterizations in large numbers of papers since then treat RobA as a transcriptional activator of the AcrAB antibiotic efflux pump.


Pssm-ID: 467958 [Multi-domain]  Cd Length: 286  Bit Score: 138.88  E-value: 1.25e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485661653  11 IHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKLTEIAQKLKESNEPILYLAERYGFESQQ 90
Cdd:NF012228   5 IRDLLVWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGQAIGAYIRARRLSKAAVALRLTSRPILDIALQYRFDSQQ 84

                         90
                 ....*....|....*...
gi 485661653  91 TLTRTFKNYFDVPPHKYR 108
Cdd:NF012228  85 TFTRAFKKQFNQTPALYR 102
PRK15121 PRK15121
MDR efflux pump AcrAB transcriptional activator RobA;
11-108 4.73e-38

MDR efflux pump AcrAB transcriptional activator RobA;


Pssm-ID: 185076 [Multi-domain]  Cd Length: 289  Bit Score: 129.74  E-value: 4.73e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485661653  11 IHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKLTEIAQKLKESNEPILYLAERYGFESQQ 90
Cdd:PRK15121   7 IRDLLIWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGHAIGAYIRARRLSKAAVALRLTSRPILDIALQYRFDSQQ 86

                         90
                 ....*....|....*...
gi 485661653  91 TLTRTFKNYFDVPPHKYR 108
Cdd:PRK15121  87 TFTRAFKKQFAQTPALYR 104
ramA_TF NF012144
RamA family antibiotic efflux transcriptional regulator;
8-108 7.15e-36

RamA family antibiotic efflux transcriptional regulator;


Pssm-ID: 411085 [Multi-domain]  Cd Length: 108  Bit Score: 118.66  E-value: 7.15e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485661653   8 AITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKLTEIAQKLKESNEPILYLAERYGFE 87
Cdd:NF012144   4 AQVIDTIVEWIDDNLHQPLRIDDIARHAGYSKWHLQRLFLQYKGESLGRYIRERKLLLAARDLRDTDQKVYDICLKYGFD 83

                         90       100
                 ....*....|....*....|.
gi 485661653  88 SQQTLTRTFKNYFDVPPHKYR 108
Cdd:NF012144  84 SQQTFTRIFTRTFNQPPGAYR 104
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
11-108 2.56e-34

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 115.02  E-value: 2.56e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485661653  11 IHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKLTEIAQKLKESNEPILYLAERYGFESQQ 90
Cdd:PRK10219   7 IQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQ 86

                         90
                 ....*....|....*...
gi 485661653  91 TLTRTFKNYFDVPPHKYR 108
Cdd:PRK10219  87 TFSRVFRRQFDRTPSDYR 104
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
25-108 1.80e-29

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 101.86  E-value: 1.80e-29
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485661653    25 PLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKLTEIAQKLKESNEPILYLAERYGFESQQTLTRTFKNYFDVPP 104
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 485661653   105 HKYR 108
Cdd:smart00342  81 SEYR 84
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 3-108 5.54e-24

Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH domain [Transcription];


Pssm-ID: 444002 [Multi-domain]  Cd Length: 318  Bit Score: 93.68  E-value: 5.54e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485661653   3 RRNTDAITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKLtEIAQK-LKESNEPILYLA 81
Cdd:COG4977  204 PLGHRDPRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRL-ERARRlLETTDLSIEEIA 282

                         90       100
                 ....*....|....*....|....*..
gi 485661653  82 ERYGFESQQTLTRTFKNYFDVPPHKYR 108
Cdd:COG4977  283 AACGFGSASHFRRAFRRRFGVSPSAYR 309
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
1-108 9.01e-23

AraC-type DNA-binding domain and AraC-containing proteins [Transcription];


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 89.45  E-value: 9.01e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485661653   1 MSRRNTDAITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKLTEIAQKLKESNEPILYL 80
Cdd:COG2207  144 LLLLLLLLLLLLLLLLLLLLLLLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEI 223

                         90       100
                 ....*....|....*....|....*...
gi 485661653  81 AERYGFESQQTLTRTFKNYFDVPPHKYR 108
Cdd:COG2207  224 AYELGFSSQSHFSRAFKKRFGVTPSEYR 251
HTH_18 pfam12833
Helix-turn-helix domain;
31-108 3.14e-17

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 70.31  E-value: 3.14e-17
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 485661653   31 VSERSGYSKWHLQRMFKKETGHSLGQYIRSRKLTEIAQKL-KESNEPILYLAERYGFESQQTLTRTFKNYFDVPPHKYR 108
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLlEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYR 79
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 7-121 8.48e-15

Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), contains Zn-binding and two AraC-type DNA-binding domains [Replication, recombination and repair];


Pssm-ID: 441772 [Multi-domain]  Cd Length: 358  Bit Score: 68.93  E-value: 8.48e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485661653   7 DAITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKLtEIAQKLKESNEPILYLAERYGF 86
Cdd:COG2169   82 RADLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRL-LRARQLLQTGLSVTDAAYAAGF 160

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 485661653  87 ESQQTLTRTFKNYFDVPPHKYRITSMPGESRYLYP 121
Cdd:COG2169  161 GSLSRFYEAFKKLLGMTPSAYRRGGAGAAIRFAPT 195
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 18-108 1.69e-11

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 59.27  E-value: 1.69e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485661653  18 IEDNLESP-LSLEKVSERSGYSKWHLQRMFKKEtGHSLGQYIRSRKLTEIAQKLKE--SNEPILYLAERYGFESQQTLTR 94
Cdd:PRK09685 206 IDQSIQEEiLRPEWIAGELGISVRSLYRLFAEQ-GLVVAQYIRNRRLDRCADDLRPaaDDEKITSIAYKWGFSDSSHFST 284

                         90
                 ....*....|....
gi 485661653  95 TFKNYFDVPPHKYR 108
Cdd:PRK09685 285 AFKQRFGVSPGEYR 298
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 10-108 5.76e-11

YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only one protein with the YSIRK variant form of signal peptide (TIGR01168) were examined for conserved genes near that one tagged protein. This protein is found adjacent to at various classes of repetitive or low-complexity YSIRK proteins (whether unique in genome or not), in a range of species (Enterococcus faecalis X98, Ruminococcus torques, Coprobacillus sp. D7, Lysinibacillus fusiformis ZC1, Streptococcus equi subsp. equi 4047, etc). The affliated YSIRK proteins include Streptococcal protective antigen (see ) and proteins with the Rib/alpha/Esp surface antigen repeat (see TIGR02331). The last quarter of this protein has an AraC family helix-turn-helix (HTH)transcriptional regulator domain.


Pssm-ID: 274977 [Multi-domain]  Cd Length: 383  Bit Score: 58.15  E-value: 5.76e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485661653   10 TIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKLTEiAQKLKESNEPILYLAERYGFESQ 89
Cdd:TIGR04094 286 LIRAVIQYINLNLYDPLKVEEIAKQFFMSESKLRKLFKKEMGISIQEYISKRKIEE-AKYLLRSQIPVSEVSNELGFYDL 364

                          90
                  ....*....|....*....
gi 485661653   90 QTLTRTFKNYFDVPPHKYR 108
Cdd:TIGR04094 365 SHFSRTFKKHTGVSPKQYQ 383
ftrA PRK09393
transcriptional activator FtrA; Provisional
 1-108 1.37e-10

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 56.90  E-value: 1.37e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485661653   1 MSRRntDAITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKLTEIAQKLKESNEPILYL 80
Cdd:PRK09393 212 VASR--ESDRLGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLESSALSIDQI 289

                         90       100
                 ....*....|....*....|....*...
gi 485661653  81 AERYGFESQQTLTRTFKNYFDVPPHKYR 108
Cdd:PRK09393 290 AERAGFGSEESLRHHFRRRAATSPAAYR 317
PRK10371 PRK10371
transcriptional regulator MelR;
11-115 1.15e-08

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 51.36  E-value: 1.15e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485661653  11 IHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKLTEIAQKLKESNEPILYLAERYGFESQQ 90
Cdd:PRK10371 193 VSQMLGFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLSDTDKSILDIALTAGFRSSS 272

                         90       100
                 ....*....|....*....|....*
gi 485661653  91 TLTRTFKNYFDVPPHKYRITSMPGE 115
Cdd:PRK10371 273 RFYSTFGKYVGMSPQQYRKLSQQRR 297
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
11-108 2.13e-07

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 47.66  E-value: 2.13e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485661653  11 IHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQY------IRSRKLteiaqkLKESNEPILYLAERY 84
Cdd:PRK10572 185 VREACQYISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWredqriSRAKLL------LQTTRMPIATIGRNV 258

                         90       100
                 ....*....|....*....|....
gi 485661653  85 GFESQQTLTRTFKNYFDVPPHKYR 108
Cdd:PRK10572 259 GYDDQLYFSRVFKKCTGASPSEFR 282
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
11-109 1.21e-06

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 45.82  E-value: 1.21e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485661653  11 IHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKLTEIAQKLKESNEPILYLAERYGFESQQ 90
Cdd:PRK13503 173 LNQLLAWLEDHFAEEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDSN 252

                         90
                 ....*....|....*....
gi 485661653  91 TLTRTFKNYFDVPPHKYRI 109
Cdd:PRK13503 253 HFSTLFRREFSWSPRDIRQ 271
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
21-108 2.29e-05

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 42.01  E-value: 2.29e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485661653  21 NLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKLTEIAQKLKESNEPILYLAERYGFESQQTLTRTFKNYF 100
Cdd:PRK13500 218 SLKSPFALDKFCDEASCSERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQHSRLLISDISTECGFEDSNYFSVVFTRET 297


                 ....*...
gi 485661653 101 DVPPHKYR 108
Cdd:PRK13500 298 GMTPSQWR 305
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 18-59 4.10e-05

Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the N-terminal arm of AraC binds to the DNA binding domain (pfam00165) and helps to hold the two DNA binding domains in a relative orientation that favours DNA looping. In the presence of arabinose, the arms bind over the arabinose on the dimerization domain, thus freeing the DNA-binding domains. The freed DNA-binding domains are then able to assume a conformation suitable for binding to the adjacent DNA sites that are utilized when AraC activates transcription, and hence AraC ceases looping the DNA when arabinose is added.


Pssm-ID: 425497 [Multi-domain]  Cd Length: 42  Bit Score: 38.29  E-value: 4.10e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 485661653   18 IEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIR 59
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYTGVTPSQYRH 42
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
18-108 8.62e-05

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 40.42  E-value: 8.62e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485661653  18 IEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKLTEIAQKLKESNEPILYLAERYGFESQQTLTRTFK 97
Cdd:PRK13502 185 LANSLECPFALDAFCQQEQCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQCGFEDSNYFSVVFT 264

                         90
                 ....*....|.
gi 485661653  98 NYFDVPPHKYR 108
Cdd:PRK13502 265 RETGMTPSQWR 275
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
14-108 8.76e-05

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 40.27  E-value: 8.76e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485661653  14 ILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKLTEIAQKLKESNEPILYLAERYGFESQQTLT 93
Cdd:PRK13501 181 IMSALQQSLGAYFDMADFCHKNQLVERSLKQLFRQQTGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFS 260

                         90
                 ....*....|....*
gi 485661653  94 RTFKNYFDVPPHKYR 108
Cdd:PRK13501 261 AVFTREAGMTPRDYR 275
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH