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Conserved domains on  [gi|2076025450|ref|WP_219919165|]
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MULTISPECIES: GyrI-like domain-containing protein [Bacillus]

Protein Classification

AraC family transcriptional regulator( domain architecture ID 10007405)

AraC family transcriptional regulator containing an AraC family helix-turn-helix (HTH) DNA-binding domain, may regulate the expression of genes with diverse biological functions including metabolism, stress response, and virulence

CATH:  1.10.10.10
Gene Ontology:  GO:0043565|GO:0003677|GO:0006355|GO:0003700
PubMed:  9409145|33837749|12596232|10473770|15808743|11282467

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SbmC COG3449
DNA gyrase inhibitor GyrI/SbmC [Replication, recombination and repair];
1-295 2.60e-63

DNA gyrase inhibitor GyrI/SbmC [Replication, recombination and repair];


:

Pssm-ID: 442672 [Multi-domain]  Cd Length: 286  Bit Score: 201.24  E-value: 2.60e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450   1 MESSQSRNEYIRRIYKVQDYIESNINDSLSIEELANVAGFSKFHFHRIFKGIVDEPLSRYVNRLKLERATNLLTYRTDmT 80
Cdd:COG3449     2 MKLRTREADQRRRILLVLIALHDDLDLLLLALLLAFAFHFFFFHRRRRFRALIGRRARLLLRRRLLAALALLLLSSSA-I 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450  81 ITDIAYHFGFTDSAVFSRTFKNYYGVSPSNYRNHNSKNckdVREGSQYNVGKKVRGEVEIVTADTVNVAYIRHVGTYKDL 160
Cdd:COG3449    81 IAAAAAASGYSSSASFRRFFRAFGGSSRSRRRRAKAKL---LALPPLDPPRLEPMMDVEIKELPPRRVAYLRHRGPYEEI 157

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450 161 AIAFpkmiEKLFHYALEQKYHVfEDTKVLTIYHDHHEFTEDYQLRTSLCITIPDESAVGtSDIGIMVIPSGKYAVGRFEI 240
Cdd:COG3449   158 GEAF----ERLIAWAKARGLLP-PDSRTIGIYYDDPDITPPEKLRYDACVTVPEDVALP-GGVEVKTIPGGRYAVLRHKG 231

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2076025450 241 HQDEYKGAWDFLYGEWLPNSGYKPRDSYPFEVYRNDPRQHPEHKHIVDIYVPIEP 295
Cdd:COG3449   232 PYEDLGAAWDWLYGEWLPASGYELRDRPCFEIYLNDPRETPEGELITDIYLPLKP 286
 
Name Accession Description Interval E-value
SbmC COG3449
DNA gyrase inhibitor GyrI/SbmC [Replication, recombination and repair];
1-295 2.60e-63

DNA gyrase inhibitor GyrI/SbmC [Replication, recombination and repair];


Pssm-ID: 442672 [Multi-domain]  Cd Length: 286  Bit Score: 201.24  E-value: 2.60e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450   1 MESSQSRNEYIRRIYKVQDYIESNINDSLSIEELANVAGFSKFHFHRIFKGIVDEPLSRYVNRLKLERATNLLTYRTDmT 80
Cdd:COG3449     2 MKLRTREADQRRRILLVLIALHDDLDLLLLALLLAFAFHFFFFHRRRRFRALIGRRARLLLRRRLLAALALLLLSSSA-I 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450  81 ITDIAYHFGFTDSAVFSRTFKNYYGVSPSNYRNHNSKNckdVREGSQYNVGKKVRGEVEIVTADTVNVAYIRHVGTYKDL 160
Cdd:COG3449    81 IAAAAAASGYSSSASFRRFFRAFGGSSRSRRRRAKAKL---LALPPLDPPRLEPMMDVEIKELPPRRVAYLRHRGPYEEI 157

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450 161 AIAFpkmiEKLFHYALEQKYHVfEDTKVLTIYHDHHEFTEDYQLRTSLCITIPDESAVGtSDIGIMVIPSGKYAVGRFEI 240
Cdd:COG3449   158 GEAF----ERLIAWAKARGLLP-PDSRTIGIYYDDPDITPPEKLRYDACVTVPEDVALP-GGVEVKTIPGGRYAVLRHKG 231

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2076025450 241 HQDEYKGAWDFLYGEWLPNSGYKPRDSYPFEVYRNDPRQHPEHKHIVDIYVPIEP 295
Cdd:COG3449   232 PYEDLGAAWDWLYGEWLPASGYELRDRPCFEIYLNDPRETPEGELITDIYLPLKP 286
GyrI-like pfam06445
GyrI-like small molecule binding domain; This family contains the small molecule binding ...
 137-293 2.89e-35

GyrI-like small molecule binding domain; This family contains the small molecule binding domain of a number of different bacterial transcription activators. This family also contains DNA gyrase inhibitors. The GyrI superfamily contains a diad of the SHS2 module, adapted for small-molecule binding. The GyrI superfamily includes a family of secreted forms that is found only in animals and the bacterial pathogen Leptospira.


Pssm-ID: 428947  Cd Length: 153  Bit Score: 124.44  E-value: 2.89e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450 137 EVEIVTADTVNVAYIRHVGTYKDLAIafPKMIEKLFHYALEQKyHVFEDTKVLTIYHDHHEFTEDYQLRTSLCITIPDES 216
Cdd:pfam06445   1 EVEIVELPAFRVAGLRHRGPYNEEGI--GALWEELCAWASENG-LSPAPSPLIGVSYDDPEVTEDEELRYDAGVAVPIPV 77

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2076025450 217 AvGTSDIGIMVIPSGKYAVGRFEIHQDEYKGAWDFLYGEWLPNSGYKPRDSYPFEVYRNDPRQHPEHKHIVDIYVPI 293
Cdd:pfam06445  78 E-GPEGVEELELPGGEYAVFRHKGPYDDLQETYAKIYGEWLPESGYERRDGPSFEIYLNDPREVPEEELKTEIYIPV 153
AraC_E_bind smart00871
Bacterial transcription activator, effector binding domain; This domain is found in the ...
 137-294 4.55e-34

Bacterial transcription activator, effector binding domain; This domain is found in the probable effector binding domain of a number of different bacterial transcription activators.and is also present in some DNA gyrase inhibitors. The absence of a HTH motif in the DNA gyrase inhibitors is thought to indicate the fact that these do not bind DNA.


Pssm-ID: 214874 [Multi-domain]  Cd Length: 158  Bit Score: 121.43  E-value: 4.55e-34
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450  137 EVEIVTADTVNVAYIRHVGTYKDLAIafPKMIEKLFHYALEQK-YHVFEDTKVLTIYHDHHEFTEDYQLRTSLCITIPDE 215
Cdd:smart00871   1 EVRIVELPAFKVAGLRHRGPNEDEKI--PELWQRLIQWAKELGlLPVGNSGEPYGVYYDDPDDTPDGEFRYDAGVEVSDE 78

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450  216 SAVGtSDIGIMVIPSGKYAVGRFEIH-QDEYKGAWDFLYGEWLPNSGYKPRDSYP-FEVYRNDPRQHPEHKHIVDIYVPI 293
Cdd:smart00871  79 VEAP-EGVETKTIPAGKYAVFTHKGGsYDEIQEAWEAIYGEWLPNSGYELRDAGPdFEVYLNDPPDTDPEELVTEIYIPV 157


                   .
gi 2076025450  294 E 294
Cdd:smart00871 158 K 158
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 1-112 1.94e-18

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 83.54  E-value: 1.94e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450   1 MESSQSRNEyiRRIYKVQDYIESNIND-SLSIEELANVAGFSKFHFHRIF--KGIVdepLSRYVNRLKLER-ATNLLTYR 76
Cdd:PRK09685  188 RESVQPRRE--RQFQKVVALIDQSIQEeILRPEWIAGELGISVRSLYRLFaeQGLV---VAQYIRNRRLDRcADDLRPAA 262

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 2076025450  77 TDMTITDIAYHFGFTDSAVFSRTFKNYYGVSPSNYR 112
Cdd:PRK09685  263 DDEKITSIAYKWGFSDSSHFSTAFKQRFGVSPGEYR 298
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 14-112 5.74e-14

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: 71.25  E-value: 5.74e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450  14 IYKVQDYIESNINDSLSIEELANVAGFSKFHFHRIFKGIVDEPLSRYVNRLKLERATNLLtyRTDMTITDIAYHFGFTDS 93
Cdd:TIGR04094 287 IRAVIQYINLNLYDPLKVEEIAKQFFMSESKLRKLFKKEMGISIQEYISKRKIEEAKYLL--RSQIPVSEVSNELGFYDL 364

                          90
                  ....*....|....*....
gi 2076025450  94 AVFSRTFKNYYGVSPSNYR 112
Cdd:TIGR04094 365 SHFSRTFKKHTGVSPKQYQ 383
 
Name Accession Description Interval E-value
SbmC COG3449
DNA gyrase inhibitor GyrI/SbmC [Replication, recombination and repair];
1-295 2.60e-63

DNA gyrase inhibitor GyrI/SbmC [Replication, recombination and repair];


Pssm-ID: 442672 [Multi-domain]  Cd Length: 286  Bit Score: 201.24  E-value: 2.60e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450   1 MESSQSRNEYIRRIYKVQDYIESNINDSLSIEELANVAGFSKFHFHRIFKGIVDEPLSRYVNRLKLERATNLLTYRTDmT 80
Cdd:COG3449     2 MKLRTREADQRRRILLVLIALHDDLDLLLLALLLAFAFHFFFFHRRRRFRALIGRRARLLLRRRLLAALALLLLSSSA-I 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450  81 ITDIAYHFGFTDSAVFSRTFKNYYGVSPSNYRNHNSKNckdVREGSQYNVGKKVRGEVEIVTADTVNVAYIRHVGTYKDL 160
Cdd:COG3449    81 IAAAAAASGYSSSASFRRFFRAFGGSSRSRRRRAKAKL---LALPPLDPPRLEPMMDVEIKELPPRRVAYLRHRGPYEEI 157

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450 161 AIAFpkmiEKLFHYALEQKYHVfEDTKVLTIYHDHHEFTEDYQLRTSLCITIPDESAVGtSDIGIMVIPSGKYAVGRFEI 240
Cdd:COG3449   158 GEAF----ERLIAWAKARGLLP-PDSRTIGIYYDDPDITPPEKLRYDACVTVPEDVALP-GGVEVKTIPGGRYAVLRHKG 231

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2076025450 241 HQDEYKGAWDFLYGEWLPNSGYKPRDSYPFEVYRNDPRQHPEHKHIVDIYVPIEP 295
Cdd:COG3449   232 PYEDLGAAWDWLYGEWLPASGYELRDRPCFEIYLNDPRETPEGELITDIYLPLKP 286
GyrI-like pfam06445
GyrI-like small molecule binding domain; This family contains the small molecule binding ...
 137-293 2.89e-35

GyrI-like small molecule binding domain; This family contains the small molecule binding domain of a number of different bacterial transcription activators. This family also contains DNA gyrase inhibitors. The GyrI superfamily contains a diad of the SHS2 module, adapted for small-molecule binding. The GyrI superfamily includes a family of secreted forms that is found only in animals and the bacterial pathogen Leptospira.


Pssm-ID: 428947  Cd Length: 153  Bit Score: 124.44  E-value: 2.89e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450 137 EVEIVTADTVNVAYIRHVGTYKDLAIafPKMIEKLFHYALEQKyHVFEDTKVLTIYHDHHEFTEDYQLRTSLCITIPDES 216
Cdd:pfam06445   1 EVEIVELPAFRVAGLRHRGPYNEEGI--GALWEELCAWASENG-LSPAPSPLIGVSYDDPEVTEDEELRYDAGVAVPIPV 77

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2076025450 217 AvGTSDIGIMVIPSGKYAVGRFEIHQDEYKGAWDFLYGEWLPNSGYKPRDSYPFEVYRNDPRQHPEHKHIVDIYVPI 293
Cdd:pfam06445  78 E-GPEGVEELELPGGEYAVFRHKGPYDDLQETYAKIYGEWLPESGYERRDGPSFEIYLNDPREVPEEELKTEIYIPV 153
AraC_E_bind smart00871
Bacterial transcription activator, effector binding domain; This domain is found in the ...
 137-294 4.55e-34

Bacterial transcription activator, effector binding domain; This domain is found in the probable effector binding domain of a number of different bacterial transcription activators.and is also present in some DNA gyrase inhibitors. The absence of a HTH motif in the DNA gyrase inhibitors is thought to indicate the fact that these do not bind DNA.


Pssm-ID: 214874 [Multi-domain]  Cd Length: 158  Bit Score: 121.43  E-value: 4.55e-34
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450  137 EVEIVTADTVNVAYIRHVGTYKDLAIafPKMIEKLFHYALEQK-YHVFEDTKVLTIYHDHHEFTEDYQLRTSLCITIPDE 215
Cdd:smart00871   1 EVRIVELPAFKVAGLRHRGPNEDEKI--PELWQRLIQWAKELGlLPVGNSGEPYGVYYDDPDDTPDGEFRYDAGVEVSDE 78

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450  216 SAVGtSDIGIMVIPSGKYAVGRFEIH-QDEYKGAWDFLYGEWLPNSGYKPRDSYP-FEVYRNDPRQHPEHKHIVDIYVPI 293
Cdd:smart00871  79 VEAP-EGVETKTIPAGKYAVFTHKGGsYDEIQEAWEAIYGEWLPNSGYELRDAGPdFEVYLNDPPDTDPEELVTEIYIPV 157


                   .
gi 2076025450  294 E 294
Cdd:smart00871 158 K 158
Cass2 pfam14526
Integron-associated effector binding protein; This family contains Cass2 from Vibrio cholerae, ...
 139-293 1.71e-29

Integron-associated effector binding protein; This family contains Cass2 from Vibrio cholerae, an integron-associated protein that has been shown to bind cationic drug compounds with submicromolar affinity. Cass2 has been proposed to be representative of a larger family of independent effector-binding proteins associated with lateral gene transfer within Vibrio and other closely-related species.


Pssm-ID: 434016 [Multi-domain]  Cd Length: 149  Bit Score: 109.37  E-value: 1.71e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450 139 EIVTADTVNVAYIRHVGTYKDLAiaFPKMIEKLFHYALEQKY--HVFEDTKVLTIYHDHHEFTEDYqlRTSLCITIPDES 216
Cdd:pfam14526   1 EIVELPSFTVAGIRYEGPNEYED--HNKEIGKFWEEFNEDGRlpNIKKDDKSYGIYVDYEDEENEF--DYYAGVEVPSFS 76

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2076025450 217 AVgTSDIGIMVIPSGKYAVGRFEI-HQDEYKGAWDFLYGEWLPNSGYKPRDSYPFEVYRNDPRQHPEhkhiVDIYVPI 293
Cdd:pfam14526  77 EL-PEGLVVIEIPGGKYAVFTIEGdFPDAIAEAWTRIYGWLLPNSGYERAGGPDFEVYKENGDENMK----IELYIPV 149
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 12-113 2.60e-28

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: 110.63  E-value: 2.60e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450  12 RRIYKVQDYIESNINDSLSIEELANVAGFSKFHFHRIFKGIVDEPLSRYVNRLKLERATNLLTyRTDMTITDIAYHFGFT 91
Cdd:COG4977   210 PRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLE-TTDLSIEEIAAACGFG 288

                          90       100
                  ....*....|....*....|..
gi 2076025450  92 DSAVFSRTFKNYYGVSPSNYRN 113
Cdd:COG4977   289 SASHFRRAFRRRFGVSPSAYRR 310
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
29-118 8.26e-26

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 102.94  E-value: 8.26e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450  29 LSIEELANVAGFSKFHFHRIFKGIVDEPLSRYVNRLKLERATNLLTyRTDMTITDIAYHFGFTDSAVFSRTFKNYYGVSP 108
Cdd:COG2207   169 LTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLA-ETDLSISEIAYELGFSSQSHFSRAFKKRFGVTP 247

                          90
                  ....*....|
gi 2076025450 109 SNYRNHNSKN 118
Cdd:COG2207   248 SEYRKRLRAR 257
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
29-112 1.39e-25

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 96.85  E-value: 1.39e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450   29 LSIEELANVAGFSKFHFHRIFKGIVDEPLSRYVNRLKLERATNLLTyRTDMTITDIAYHFGFTDSAVFSRTFKNYYGVSP 108
Cdd:smart00342   2 LTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLR-DTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 2076025450  109 SNYR 112
Cdd:smart00342  81 SEYR 84
HTH_18 pfam12833
Helix-turn-helix domain;
34-113 2.55e-23

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 91.11  E-value: 2.55e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450  34 LANVAGFSKFHFHRIFKGIVDEPLSRYVNRLKLERATNLLTYRTDMTITDIAYHFGFTDSAVFSRTFKNYYGVSPSNYRN 113
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 1-112 1.94e-18

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 83.54  E-value: 1.94e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450   1 MESSQSRNEyiRRIYKVQDYIESNIND-SLSIEELANVAGFSKFHFHRIF--KGIVdepLSRYVNRLKLER-ATNLLTYR 76
Cdd:PRK09685  188 RESVQPRRE--RQFQKVVALIDQSIQEeILRPEWIAGELGISVRSLYRLFaeQGLV---VAQYIRNRRLDRcADDLRPAA 262

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 2076025450  77 TDMTITDIAYHFGFTDSAVFSRTFKNYYGVSPSNYR 112
Cdd:PRK09685  263 DDEKITSIAYKWGFSDSSHFSTAFKQRFGVSPGEYR 298
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 19-114 1.85e-16

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: 78.56  E-value: 1.85e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450  19 DYIESNINDSLSIEELANVAGFSKFHFHRIFK---GIVdePLSrYVNRLKLERATNLLTyrTDMTITDIAYHFGFTDSAV 95
Cdd:COG2169    91 RLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKahtGVT--PKA-YARARRLLRARQLLQ--TGLSVTDAAYAAGFGSLSR 165

                          90
                  ....*....|....*....
gi 2076025450  96 FSRTFKNYYGVSPSNYRNH 114
Cdd:COG2169   166 FYEAFKKLLGMTPSAYRRG 184
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
14-113 4.33e-16

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 72.65  E-value: 4.33e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450  14 IYKVQDYIESNINDSLSIEELANVAGFSKFHFHRIFKGIVDEPLSRYVNRLKLERATNLLTyRTDMTITDIAYHFGFTDS 93
Cdd:PRK10219    7 IQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELR-TTERPIFDIAMDLGYVSQ 85

                          90       100
                  ....*....|....*....|
gi 2076025450  94 AVFSRTFKNYYGVSPSNYRN 113
Cdd:PRK10219   86 QTFSRVFRRQFDRTPSDYRH 105
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
7-112 1.04e-14

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 69.36  E-value: 1.04e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450   7 RNEYIRRIYKVQDYIESNINDSLSIEELANVAGFSKFHFHRIFKGIVDEPLSRYVNRLKLERATNLLTyRTDMTITDIAY 86
Cdd:PRK11511    4 RNTDAITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLK-ESNEPILYLAE 82

                          90       100
                  ....*....|....*....|....*.
gi 2076025450  87 HFGFTDSAVFSRTFKNYYGVSPSNYR 112
Cdd:PRK11511   83 RYGFESQQTLTRTFKNYFDVPPHKYR 108
BltR2 COG4978
GyrI-like small molecule binding domain [Signal transduction mechanisms];
138-289 1.11e-14

GyrI-like small molecule binding domain [Signal transduction mechanisms];


Pssm-ID: 444003  Cd Length: 144  Bit Score: 69.65  E-value: 1.11e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450 138 VEIVTADTVNVAYIRHVGTYKDLAIAFPKMIEKLFHYALEQkyHVFEDTKVLTIYHDhhefTEDYQLRTSLCITIpDESA 217
Cdd:COG4978     1 VEVKELPAQPVASIRATVPMDELGELIGEAFGELFAYLAEN--GIEPAGPPFAIYHD----TDEDDVDVEVGVPV-AGPL 73

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2076025450 218 VGTSDIGIMVIPSGKYAVGRFEIHQDEYKGAWDFLyGEWLPNSGYKPRDSyPFEVYRNDPRQHP-EHKHIVDI 289
Cdd:COG4978    74 PGTGDIKVGTLPAGKAATATHRGPYDTLDEAYEAL-LAWIEENGLEVAGP-PREVYLTDPGNEPdPEEWVTEI 144
YdeE COG3708
Predicted transcriptional regulator YdeE, contains AraC-type DNA-binding domain [Transcription] ...
 137-294 4.48e-14

Predicted transcriptional regulator YdeE, contains AraC-type DNA-binding domain [Transcription];


Pssm-ID: 442922  Cd Length: 157  Bit Score: 68.51  E-value: 4.48e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450 137 EVEIVTADTVNVAYIRHVGTYKDLAI--AFPKMIEKLFHYALEQKYHVFEDTKVLTIYHDHHEFTEDYQ----LRTSLCI 210
Cdd:COG3708     2 EYRIVEKPAFKLVGLSARTSNSDEEAneEIPALWQRFLPEGLAEIPNLSNPGGLYGVCTDYESDEGEFDylagVEVSSFD 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450 211 TIPDESAVgtsdigiMVIPSGKYAVgrFEIH---QDEYKGAWDFLYGEWLPNSGYKPRDSYPFEVYrnDPRQHPEHKHIV 287
Cdd:COG3708    82 EVPEGLET-------LEIPAGTYAV--FTHKgpmPEALQETWQYIYSEWLPSSGYERADGPDFEVY--DERDDPSPDSEV 150


                  ....*..
gi 2076025450 288 DIYVPIE 294
Cdd:COG3708   151 EIWIPIK 157
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 14-112 5.74e-14

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: 71.25  E-value: 5.74e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450  14 IYKVQDYIESNINDSLSIEELANVAGFSKFHFHRIFKGIVDEPLSRYVNRLKLERATNLLtyRTDMTITDIAYHFGFTDS 93
Cdd:TIGR04094 287 IRAVIQYINLNLYDPLKVEEIAKQFFMSESKLRKLFKKEMGISIQEYISKRKIEEAKYLL--RSQIPVSEVSNELGFYDL 364

                          90
                  ....*....|....*....
gi 2076025450  94 AVFSRTFKNYYGVSPSNYR 112
Cdd:TIGR04094 365 SHFSRTFKKHTGVSPKQYQ 383
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
12-112 1.62e-13

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 69.32  E-value: 1.62e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450  12 RRIYKVQDYIESNINDSLSIEELANVAGFSKFHFHRIFKGIVDEPLSRYVNRLKLERATNLLTYrTDMTITDIAYHFGFT 91
Cdd:PRK13503  171 ARLNQLLAWLEDHFAEEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRH-SDASVTDIAYRCGFG 249

                          90       100
                  ....*....|....*....|.
gi 2076025450  92 DSAVFSRTFKNYYGVSPSNYR 112
Cdd:PRK13503  250 DSNHFSTLFRREFSWSPRDIR 270
PRK10016 PRK10016
DNA gyrase inhibitor SbmC;
138-295 4.79e-13

DNA gyrase inhibitor SbmC;


Pssm-ID: 182195  Cd Length: 156  Bit Score: 65.46  E-value: 4.79e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450 138 VEIVTADTVNVAYIRHVGTYKDLAiafPKMIEKLFhyALEQKYHVfEDTKVLTIYHDHHEFTEDYQLRTSLCITIPDESA 217
Cdd:PRK10016    3 YEIKQEQKRTIAGFHLVGPWEQTV---KQGFEQLM--MWVDSHNI-VPKEWVAVYYDNPDEVPAEKLRCDTVVTVPDDFV 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450 218 VGTSDIGIMV--IPSGKYAVGRFEIHQDEYKGAWDFLYGEWLPNSGYKPRDSYPFEVYRNDPRQHPEHKhiVDIYVPIEP 295
Cdd:PRK10016   77 LPENSEGVILteIPGGQYAVAVARVVDDDFAKPWYQFFNSLLQDSAYQMAPKPCFEVYLNDGAEDGYWD--IEMYVPVQK 154
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
13-113 6.87e-10

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 58.83  E-value: 6.87e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450  13 RIYKVQDYIESNINDSLSIEELANVAGFSKFHFHRIFKGIVDEPLSRYVNRLKLERAtNLLTYRTDMTITDIAYHFGFTD 92
Cdd:PRK10572  184 RVREACQYISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRA-KLLLQTTRMPIATIGRNVGYDD 262

                          90       100
                  ....*....|....*....|.
gi 2076025450  93 SAVFSRTFKNYYGVSPSNYRN 113
Cdd:PRK10572  263 QLYFSRVFKKCTGASPSEFRA 283
PRK10371 PRK10371
transcriptional regulator MelR;
3-112 1.00e-09

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 58.29  E-value: 1.00e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450   3 SSQSRNEY-IRRIYKVQDYIESNINDSLSIEELANVAGFSKFHFHRIFKGIVDEPLSRYVNRLKLERATNLLTyRTDMTI 81
Cdd:PRK10371  181 HKNSVSRHaQFYVSQMLGFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLS-DTDKSI 259

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2076025450  82 TDIAYHFGFTDSAVFSRTFKNYYGVSPSNYR 112
Cdd:PRK10371  260 LDIALTAGFRSSSRFYSTFGKYVGMSPQQYR 290
PRK15121 PRK15121
MDR efflux pump AcrAB transcriptional activator RobA;
20-112 7.22e-09

MDR efflux pump AcrAB transcriptional activator RobA;


Pssm-ID: 185076 [Multi-domain]  Cd Length: 289  Bit Score: 55.78  E-value: 7.22e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450  20 YIESNINDSLSIEELANVAGFSKFHFHRIFKGIVDEPLSRYVNRLKLERATNLLTYrTDMTITDIAYHFGFTDSAVFSRT 99
Cdd:PRK15121   13 WLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGHAIGAYIRARRLSKAAVALRL-TSRPILDIALQYRFDSQQTFTRA 91

                          90
                  ....*....|...
gi 2076025450 100 FKNYYGVSPSNYR 112
Cdd:PRK15121   92 FKKQFAQTPALYR 104
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 75-113 1.84e-08

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: 49.46  E-value: 1.84e-08
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 2076025450  75 YRTDMTITDIAYHFGFtDSAVFSRTFKNYYGVSPSNYRN 113
Cdd:pfam00165   5 LSTNLTIADIADELGF-SRSYFSRLFKKYTGVTPSQYRH 42
ftrA PRK09393
transcriptional activator FtrA; Provisional
 12-112 6.95e-07

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 49.96  E-value: 6.95e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450  12 RRIYKVQDYIESNINDSLSIEELANVAGFSKFHFHRIFKGIVDEPLSRYVNRLKLERATNLLTyRTDMTITDIAYHFGFT 91
Cdd:PRK09393  218 DRLGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLE-SSALSIDQIAERAGFG 296

                          90       100
                  ....*....|....*....|.
gi 2076025450  92 DSAVFSRTFKNYYGVSPSNYR 112
Cdd:PRK09393  297 SEESLRHHFRRRAATSPAAYR 317
PRK15435 PRK15435
bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;
29-113 2.93e-06

bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;


Pssm-ID: 185333 [Multi-domain]  Cd Length: 353  Bit Score: 47.87  E-value: 2.93e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450  29 LSIEELANVAGFSKFHFHRIFKGIVDEPLSRYVNRLKLERATNLLtyRTDMTITDIAYHFGFTDSAVFSRTFKNYYGVSP 108
Cdd:PRK15435  100 VTLEALADQVAMSPFHLHRLFKATTGMTPKAWQQAWRARRLREAL--AKGESVTTSILNAGFPDSSSYYRKADETLGMTA 177


                  ....*
gi 2076025450 109 SNYRN 113
Cdd:PRK15435  178 KQFRH 182
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 21-62 2.92e-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: 40.60  E-value: 2.92e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 2076025450  21 IESNINDSLSIEELANVAGFSKFHFHRIFKGIVDEPLSRYVN 62
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYTGVTPSQYRH 42
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
57-112 7.23e-04

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 40.66  E-value: 7.23e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2076025450  57 LSRYVNRLKLERATNLLTyRTDMTITDIAYHFGFTDSAVFSRTFKNYYGVSPSNYR 112
Cdd:PRK13501  221 ISHYLRQIRLCHAKCLLR-GSEHRISDIAARCGFEDSNYFSAVFTREAGMTPRDYR 275
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
21-117 7.24e-04

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 40.47  E-value: 7.24e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2076025450  21 IESNINDSLSIEELANVAGFSKFHFHRIFKGIVDEPLSRYVNRLKLERATNLLTYrTDMTITDIAYHFGFTDSAVFSRTF 100
Cdd:PRK13500  215 LAASLKSPFALDKFCDEASCSERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQH-SRLLISDISTECGFEDSNYFSVVF 293

                          90
                  ....*....|....*..
gi 2076025450 101 KNYYGVSPSNYRNHNSK 117
Cdd:PRK13500  294 TRETGMTPSQWRHLNSQ 310
PRK10296 PRK10296
DNA-binding transcriptional regulator ChbR; Provisional
 77-114 4.45e-03

DNA-binding transcriptional regulator ChbR; Provisional


Pssm-ID: 182362 [Multi-domain]  Cd Length: 278  Bit Score: 37.81  E-value: 4.45e-03
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 2076025450  77 TDMTITDIAYHFGFTDSAVFSRTFKNYYGVSPSNYRNH 114
Cdd:PRK10296  236 TNYSVTDIAFEAGYSSPSLFIKTFKKLTSFTPGSYRKK 273
 
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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