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Conserved domains on  [gi|1546777742|ref|WP_126795280|]
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GyrI-like domain-containing protein [Enterobacter asburiae]

Protein Classification

GyrI-like domain-containing protein( domain architecture ID 10007405)

GyrI-like domain-containing protein adopts a beta-barrel fold similar to the effector-binding region of AraC/XylS transcription activators and may bind a small molecule; similar to Escherichia coli probable transcriptional regulator YgiV

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];
1-287 1.17e-81

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


:

Pssm-ID: 442672 [Multi-domain]  Cd Length: 286  Bit Score: 247.85  E-value: 1.17e-81
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742   1 MNDAIKTAYRERFTTVCDYIAQHLDEPLTLEMLSALACCSPYHFHRQFLAFSGQPLYRYIQWLRLRHASWRLAFNPQDKV 80
Cdd:COG3449     1 MMKLRTREADQRRRILLVLIALHDDLDLLLLALLLAFAFHFFFFHRRRRFRALIGRRARLLLRRRLLAALALLLLSSSAI 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742  81 IDIALDAGFQSPESFSRAFKNAFGKSPRQFRQQPDWLNWHQRVPKMTFQEQkTMEIKIVDFPQTQVAMLQHRGNPDRVND 160
Cdd:COG3449    81 IAAAAAASGYSSSASFRRFFRAFGGSSRSRRRRAKAKLLALPPLDPPRLEP-MMDVEIKELPPRRVAYLRHRGPYEEIGE 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742 161 SAAKFIAWRKSTSLSPvHESSTFGIAWDDPATTPADAFRFDICGSISEAIPENEfGVCSGEIDGGRYAVARHTGSLDTIS 240
Cdd:COG3449   160 AFERLIAWAKARGLLP-PDSRTIGIYYDDPDITPPEKLRYDACVTVPEDVALPG-GVEVKTIPGGRYAVLRHKGPYEDLG 237

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....*..
gi 1546777742 241 ATVWAMFRDWLPASGETLRDAPVFFHYLNFIHEVPEHALQTDIYLPL 287
Cdd:COG3449   238 AAWDWLYGEWLPASGYELRDRPCFEIYLNDPRETPEGELITDIYLPL 284
 
Name Accession Description Interval E-value
SbmC COG3449
DNA gyrase inhibitor GyrI/SbmC [Replication, recombination and repair];
1-287 1.17e-81

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


Pssm-ID: 442672 [Multi-domain]  Cd Length: 286  Bit Score: 247.85  E-value: 1.17e-81
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742   1 MNDAIKTAYRERFTTVCDYIAQHLDEPLTLEMLSALACCSPYHFHRQFLAFSGQPLYRYIQWLRLRHASWRLAFNPQDKV 80
Cdd:COG3449     1 MMKLRTREADQRRRILLVLIALHDDLDLLLLALLLAFAFHFFFFHRRRRFRALIGRRARLLLRRRLLAALALLLLSSSAI 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742  81 IDIALDAGFQSPESFSRAFKNAFGKSPRQFRQQPDWLNWHQRVPKMTFQEQkTMEIKIVDFPQTQVAMLQHRGNPDRVND 160
Cdd:COG3449    81 IAAAAAASGYSSSASFRRFFRAFGGSSRSRRRRAKAKLLALPPLDPPRLEP-MMDVEIKELPPRRVAYLRHRGPYEEIGE 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742 161 SAAKFIAWRKSTSLSPvHESSTFGIAWDDPATTPADAFRFDICGSISEAIPENEfGVCSGEIDGGRYAVARHTGSLDTIS 240
Cdd:COG3449   160 AFERLIAWAKARGLLP-PDSRTIGIYYDDPDITPPEKLRYDACVTVPEDVALPG-GVEVKTIPGGRYAVLRHKGPYEDLG 237

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....*..
gi 1546777742 241 ATVWAMFRDWLPASGETLRDAPVFFHYLNFIHEVPEHALQTDIYLPL 287
Cdd:COG3449   238 AAWDWLYGEWLPASGYELRDRPCFEIYLNDPRETPEGELITDIYLPL 284
GyrI-like pfam06445
GyrI-like small molecule binding domain; This family contains the small molecule binding ...
 135-287 9.82e-43

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: 143.70  E-value: 9.82e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742 135 EIKIVDFPQTQVAMLQHRGNPDR--VNDSAAKFIAWRKSTSLSPvHESSTFGIAWDDPATTPADAFRFDICGSISEAIPE 212
Cdd:pfam06445   1 EVEIVELPAFRVAGLRHRGPYNEegIGALWEELCAWASENGLSP-APSPLIGVSYDDPEVTEDEELRYDAGVAVPIPVEG 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1546777742 213 NEfGVCSGEIDGGRYAVARHTGSLDTISATVWAMFRDWLPASGETLRDAPVFFHYLNFIHEVPEHALQTDIYLPL 287
Cdd:pfam06445  80 PE-GVEELELPGGEYAVFRHKGPYDDLQETYAKIYGEWLPESGYERRDGPSFEIYLNDPREVPEEELKTEIYIPV 153
AraC_E_bind smart00871
Bacterial transcription activator, effector binding domain; This domain is found in the ...
 135-287 4.55e-38

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: 131.83  E-value: 4.55e-38
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742  135 EIKIVDFPQTQVAMLQHRGNPD--RVNDSAAKFIAWRKSTSLSPVHESS-TFGIAWDDPATTPADAFRFDICGSISEAIP 211
Cdd:smart00871   1 EVRIVELPAFKVAGLRHRGPNEdeKIPELWQRLIQWAKELGLLPVGNSGePYGVYYDDPDDTPDGEFRYDAGVEVSDEVE 80

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1546777742  212 ENEfGVCSGEIDGGRYAVARHTG-SLDTISATVWAMFRDWLPASGETLRDAPVFFH-YLNFIHEVPEHALQTDIYLPL 287
Cdd:smart00871  81 APE-GVETKTIPAGKYAVFTHKGgSYDEIQEAWEAIYGEWLPNSGYELRDAGPDFEvYLNDPPDTDPEELVTEIYIPV 157
ftrA PRK09393
transcriptional activator FtrA; Provisional
 10-113 1.01e-15

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 75.77  E-value: 1.01e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742  10 RERFTTVCDYIAQHLDEPLTLEMLSALACCSPYHFHRQFLAFSGQPLYRYIQWLRLRHASWRLAfNPQDKVIDIALDAGF 89
Cdd:PRK09393  217 SDRLGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLE-SSALSIDQIAERAGF 295

                          90       100
                  ....*....|....*....|....
gi 1546777742  90 QSPESFSRAFKNAFGKSPRQFRQQ 113
Cdd:PRK09393  296 GSEESLRHHFRRRAATSPAAYRKR 319
viru_reg_Rsp NF033869
AraC family transcriptional regulator Rsp; Rsp (repressor of surface proteins), as described ...
 13-130 3.58e-04

AraC family transcriptional regulator Rsp; Rsp (repressor of surface proteins), as described in Staphylococcus aureus, is a large protein with an AraC-like helix-turn-helix DNA-binding domain. Regulatory targets include the accessory gene regulator (agr) operon, which in turn regulates a large number of virulence factors.


Pssm-ID: 411433 [Multi-domain]  Cd Length: 701  Bit Score: 42.01  E-value: 3.58e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742  13 FTTVCDYIAQHLDEPLTLEMLSALACCSPYHFHRQFLAFSGQPLYRYIQWLRLRHASwRLAFNPQDKVIDIALDAGFQSP 92
Cdd:NF033869  149 FINCLTFIHDHISSNLSLRDVAQHCNISESYCSNLFVRYLNMNFKDYFTSLKLCHAI-QLLLSTNHSINAISELSGFSSH 227

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1546777742  93 ESFSRAFKNAFGKSPRQFRQQpdwLNWHQRVPKMTFQE 130
Cdd:NF033869  228 TNFTNQFKNYLNFSPKQFRTL---LSKIDPLPQIHFSS 262
 
Name Accession Description Interval E-value
SbmC COG3449
DNA gyrase inhibitor GyrI/SbmC [Replication, recombination and repair];
1-287 1.17e-81

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


Pssm-ID: 442672 [Multi-domain]  Cd Length: 286  Bit Score: 247.85  E-value: 1.17e-81
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742   1 MNDAIKTAYRERFTTVCDYIAQHLDEPLTLEMLSALACCSPYHFHRQFLAFSGQPLYRYIQWLRLRHASWRLAFNPQDKV 80
Cdd:COG3449     1 MMKLRTREADQRRRILLVLIALHDDLDLLLLALLLAFAFHFFFFHRRRRFRALIGRRARLLLRRRLLAALALLLLSSSAI 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742  81 IDIALDAGFQSPESFSRAFKNAFGKSPRQFRQQPDWLNWHQRVPKMTFQEQkTMEIKIVDFPQTQVAMLQHRGNPDRVND 160
Cdd:COG3449    81 IAAAAAASGYSSSASFRRFFRAFGGSSRSRRRRAKAKLLALPPLDPPRLEP-MMDVEIKELPPRRVAYLRHRGPYEEIGE 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742 161 SAAKFIAWRKSTSLSPvHESSTFGIAWDDPATTPADAFRFDICGSISEAIPENEfGVCSGEIDGGRYAVARHTGSLDTIS 240
Cdd:COG3449   160 AFERLIAWAKARGLLP-PDSRTIGIYYDDPDITPPEKLRYDACVTVPEDVALPG-GVEVKTIPGGRYAVLRHKGPYEDLG 237

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....*..
gi 1546777742 241 ATVWAMFRDWLPASGETLRDAPVFFHYLNFIHEVPEHALQTDIYLPL 287
Cdd:COG3449   238 AAWDWLYGEWLPASGYELRDRPCFEIYLNDPRETPEGELITDIYLPL 284
GyrI-like pfam06445
GyrI-like small molecule binding domain; This family contains the small molecule binding ...
 135-287 9.82e-43

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: 143.70  E-value: 9.82e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742 135 EIKIVDFPQTQVAMLQHRGNPDR--VNDSAAKFIAWRKSTSLSPvHESSTFGIAWDDPATTPADAFRFDICGSISEAIPE 212
Cdd:pfam06445   1 EVEIVELPAFRVAGLRHRGPYNEegIGALWEELCAWASENGLSP-APSPLIGVSYDDPEVTEDEELRYDAGVAVPIPVEG 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1546777742 213 NEfGVCSGEIDGGRYAVARHTGSLDTISATVWAMFRDWLPASGETLRDAPVFFHYLNFIHEVPEHALQTDIYLPL 287
Cdd:pfam06445  80 PE-GVEELELPGGEYAVFRHKGPYDDLQETYAKIYGEWLPESGYERRDGPSFEIYLNDPREVPEEELKTEIYIPV 153
AraC_E_bind smart00871
Bacterial transcription activator, effector binding domain; This domain is found in the ...
 135-287 4.55e-38

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: 131.83  E-value: 4.55e-38
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742  135 EIKIVDFPQTQVAMLQHRGNPD--RVNDSAAKFIAWRKSTSLSPVHESS-TFGIAWDDPATTPADAFRFDICGSISEAIP 211
Cdd:smart00871   1 EVRIVELPAFKVAGLRHRGPNEdeKIPELWQRLIQWAKELGLLPVGNSGePYGVYYDDPDDTPDGEFRYDAGVEVSDEVE 80

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1546777742  212 ENEfGVCSGEIDGGRYAVARHTG-SLDTISATVWAMFRDWLPASGETLRDAPVFFH-YLNFIHEVPEHALQTDIYLPL 287
Cdd:smart00871  81 APE-GVETKTIPAGKYAVFTHKGgSYDEIQEAWEAIYGEWLPNSGYELRDAGPDFEvYLNDPPDTDPEELVTEIYIPV 157
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
27-111 2.84e-26

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 98.78  E-value: 2.84e-26
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742   27 PLTLEMLSALACCSPYHFHRQFLAFSGQPLYRYIQWLRLRHASWRLAfNPQDKVIDIALDAGFQSPESFSRAFKNAFGKS 106
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLR-DTDLSVTEIALRVGFSSQSYFSRAFKKLFGVT 79


                   ....*
gi 1546777742  107 PRQFR 111
Cdd:smart00342  80 PSEYR 84
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 11-113 2.03e-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: 99.85  E-value: 2.03e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742  11 ERFTTVCDYIAQHLDEPLTLEMLSALACCSPYHFHRQFLAFSGQPLYRYIQWLRLRHASWRLAfNPQDKVIDIALDAGFQ 90
Cdd:COG4977   210 PRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLE-TTDLSIEEIAAACGFG 288

                          90       100
                  ....*....|....*....|...
gi 1546777742  91 SPESFSRAFKNAFGKSPRQFRQQ 113
Cdd:COG4977   289 SASHFRRAFRRRFGVSPSAYRRR 311
HTH_18 pfam12833
Helix-turn-helix domain;
33-113 2.73e-24

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 93.42  E-value: 2.73e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742  33 LSALACCSPYHFHRQFLAFSGQPLYRYIQWLRLRHASWRLAFNPQDKVIDIALDAGFQSPESFSRAFKNAFGKSPRQFRQ 112
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 1546777742 113 Q 113
Cdd:pfam12833  81 R 81
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
20-113 2.55e-23

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 96.00  E-value: 2.55e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742  20 IAQHLDEPLTLEMLSALACCSPYHFHRQFLAFSGQPLYRYIQWLRLRHASWRLAfNPQDKVIDIALDAGFQSPESFSRAF 99
Cdd:COG2207   161 LLLLLLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLA-ETDLSISEIAYELGFSSQSHFSRAF 239

                          90
                  ....*....|....
gi 1546777742 100 KNAFGKSPRQFRQQ 113
Cdd:COG2207   240 KKRFGVTPSEYRKR 253
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 16-113 5.50e-18

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: 82.79  E-value: 5.50e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742  16 VCDYIAQHLDEPLTLEMLSALACCSPYHFHRQFLAFSGQPLYRYIQWLRLRHAswRLAFNPQDKVIDIALDAGFQSPESF 95
Cdd:COG2169    89 ACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRA--RQLLQTGLSVTDAAYAAGFGSLSRF 166

                          90
                  ....*....|....*...
gi 1546777742  96 SRAFKNAFGKSPRQFRQQ 113
Cdd:COG2169   167 YEAFKKLLGMTPSAYRRG 184
ftrA PRK09393
transcriptional activator FtrA; Provisional
 10-113 1.01e-15

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 75.77  E-value: 1.01e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742  10 RERFTTVCDYIAQHLDEPLTLEMLSALACCSPYHFHRQFLAFSGQPLYRYIQWLRLRHASWRLAfNPQDKVIDIALDAGF 89
Cdd:PRK09393  217 SDRLGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLE-SSALSIDQIAERAGF 295

                          90       100
                  ....*....|....*....|....
gi 1546777742  90 QSPESFSRAFKNAFGKSPRQFRQQ 113
Cdd:PRK09393  296 GSEESLRHHFRRRAATSPAAYRKR 319
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
15-113 2.69e-14

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 67.64  E-value: 2.69e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742  15 TVCDYIAQHLDEPLTLEMLSALACCSPYHFHRQFLAFSGQPLYRYIQWLRLRHASWRLAfNPQDKVIDIALDAGFQSPES 94
Cdd:PRK10219    9 TLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELR-TTERPIFDIAMDLGYVSQQT 87

                          90
                  ....*....|....*....
gi 1546777742  95 FSRAFKNAFGKSPRQFRQQ 113
Cdd:PRK10219   88 FSRVFRRQFDRTPSDYRHR 106
PRK15121 PRK15121
MDR efflux pump AcrAB transcriptional activator RobA;
23-116 4.43e-14

MDR efflux pump AcrAB transcriptional activator RobA;


Pssm-ID: 185076 [Multi-domain]  Cd Length: 289  Bit Score: 70.81  E-value: 4.43e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742  23 HLDEPLTLEMLSALACCSPYHFHRQFLAFSGQPLYRYIQWLRLRHAS--WRLAFNPqdkVIDIALDAGFQSPESFSRAFK 100
Cdd:PRK15121   17 HLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGHAIGAYIRARRLSKAAvaLRLTSRP---ILDIALQYRFDSQQTFTRAFK 93

                          90
                  ....*....|....*.
gi 1546777742 101 NAFGKSPRQFRQQPDW 116
Cdd:PRK15121   94 KQFAQTPALYRRSPEW 109
PRK15435 PRK15435
bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;
11-112 1.59e-12

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


Pssm-ID: 185333 [Multi-domain]  Cd Length: 353  Bit Score: 66.74  E-value: 1.59e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742  11 ERFTTVCDYIAQhlDEPLTLEMLSALACCSPYHFHRQFLAFSGQPLYRYIQWLRLRHAswRLAFNPQDKVIDIALDAGFQ 90
Cdd:PRK15435   85 DKITHACRLLEQ--ETPVTLEALADQVAMSPFHLHRLFKATTGMTPKAWQQAWRARRL--REALAKGESVTTSILNAGFP 160

                          90       100
                  ....*....|....*....|..
gi 1546777742  91 SPESFSRAFKNAFGKSPRQFRQ 112
Cdd:PRK15435  161 DSSSYYRKADETLGMTAKQFRH 182
PRK10016 PRK10016
DNA gyrase inhibitor SbmC;
187-269 5.67e-11

DNA gyrase inhibitor SbmC;


Pssm-ID: 182195  Cd Length: 156  Bit Score: 59.68  E-value: 5.67e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742 187 WDDPATTPADAFRFDICGSISE--AIPENEFGVCSGEIDGGRYAVArHTGSLDTISATVW-AMFRDWLPASGETLRDAPV 263
Cdd:PRK10016   52 YDNPDEVPAEKLRCDTVVTVPDdfVLPENSEGVILTEIPGGQYAVA-VARVVDDDFAKPWyQFFNSLLQDSAYQMAPKPC 130


                  ....*.
gi 1546777742 264 FFHYLN 269
Cdd:PRK10016  131 FEVYLN 136
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
2-111 1.25e-10

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 58.19  E-value: 1.25e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742   2 NDAIKtayrerFTTVCDYIAQHLDEPLTLEMLSALACCSPYHFHRQFLAFSGQPLYRYIQWLRLRHASWRLAfNPQDKVI 81
Cdd:PRK11511    6 TDAIT------IHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLK-ESNEPIL 78

                          90       100       110
                  ....*....|....*....|....*....|
gi 1546777742  82 DIALDAGFQSPESFSRAFKNAFGKSPRQFR 111
Cdd:PRK11511   79 YLAERYGFESQQTLTRTFKNYFDVPPHKYR 108
Cass2 pfam14526
Integron-associated effector binding protein; This family contains Cass2 from Vibrio cholerae, ...
 137-287 4.65e-09

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: 54.28  E-value: 4.65e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742 137 KIVDFPQTQVAMLQHRG------NPDRVNDSAAKFIAWRKSTSLSPVheSSTFGIAWDDPatTPADAFRFDICGSISEaI 210
Cdd:pfam14526   1 EIVELPSFTVAGIRYEGpneyedHNKEIGKFWEEFNEDGRLPNIKKD--DKSYGIYVDYE--DEENEFDYYAGVEVPS-F 75

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1546777742 211 PENEFGVCSGEIDGGRYAVARHTGSLDTISATVW-AMFRDWLPASGETLRDAPVFFHYlnfiHEVPEHALQTDIYLPL 287
Cdd:pfam14526  76 SELPEGLVVIEIPGGKYAVFTIEGDFPDAIAEAWtRIYGWLLPNSGYERAGGPDFEVY----KENGDENMKIELYIPV 149
BltR2 COG4978
GyrI-like small molecule binding domain [Signal transduction mechanisms];
193-283 5.37e-09

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


Pssm-ID: 444003  Cd Length: 144  Bit Score: 53.85  E-value: 5.37e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742 193 TPADAFRFDICGSISEAIPENEfGVCSGEIDGGRYAVARHTGSLDTISATvWAMFRDWLPASGETLrDAPVFFHYLN-FI 271
Cdd:COG4978    56 TDEDDVDVEVGVPVAGPLPGTG-DIKVGTLPAGKAATATHRGPYDTLDEA-YEALLAWIEENGLEV-AGPPREVYLTdPG 132

                          90
                  ....*....|..
gi 1546777742 272 HEVPEHALQTDI 283
Cdd:COG4978   133 NEPDPEEWVTEI 144
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
45-115 1.33e-08

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 54.68  E-value: 1.33e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1546777742  45 HRQFLAFSGQPLYRYIQWLRLRHASWRLAFNpQDKVIDIALDAGFQSPESFSRAFKNAFGKSPRQFRQQPD 115
Cdd:PRK13503  205 HRQLKQQTGLTPQRYLNRLRLLKARHLLRHS-DASVTDIAYRCGFGDSNHFSTLFRREFSWSPRDIRQGRD 274
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
12-113 2.05e-08

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 54.21  E-value: 2.05e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742  12 RFTTVCDYIAQHLDEPLTLEMLSALACCSPY---HFHRQFLafsGQPLYRYIQWLRLRHASWRLAFNPQdKVIDIALDAG 88
Cdd:PRK10572  184 RVREACQYISDHLASEFDIESVAQHVCLSPSrlaHLFRQQL---GISVLRWREDQRISRAKLLLQTTRM-PIATIGRNVG 259

                          90       100
                  ....*....|....*....|....*
gi 1546777742  89 FQSPESFSRAFKNAFGKSPRQFRQQ 113
Cdd:PRK10572  260 YDDQLYFSRVFKKCTGASPSEFRAR 284
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 20-113 7.25e-08

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 52.73  E-value: 7.25e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742  20 IAQHLDEP-LTLEMLSALACCSPYHFHRQFlAFSGQPLYRYIQWLRL-RHASWRLAFNPQDKVIDIALDAGFQSPESFSR 97
Cdd:PRK09685  206 IDQSIQEEiLRPEWIAGELGISVRSLYRLF-AEQGLVVAQYIRNRRLdRCADDLRPAADDEKITSIAYKWGFSDSSHFST 284

                          90
                  ....*....|....*.
gi 1546777742  98 AFKNAFGKSPRQFRQQ 113
Cdd:PRK09685  285 AFKQRFGVSPGEYRRK 300
PRK10371 PRK10371
transcriptional regulator MelR;
18-114 1.62e-07

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 51.74  E-value: 1.62e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742  18 DYIAQHLDEPLTLEMLSALACCSPYHFHRQFLAFSGQPLYRYIQWLRLRHAswRLAFNPQDK-VIDIALDAGFQSPESFS 96
Cdd:PRK10371  198 GFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHV--RALLSDTDKsILDIALTAGFRSSSRFY 275

                          90
                  ....*....|....*...
gi 1546777742  97 RAFKNAFGKSPRQFRQQP 114
Cdd:PRK10371  276 STFGKYVGMSPQQYRKLS 293
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 79-112 9.22e-07

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: 44.84  E-value: 9.22e-07
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1546777742  79 KVIDIALDAGFqSPESFSRAFKNAFGKSPRQFRQ 112
Cdd:pfam00165  10 TIADIADELGF-SRSYFSRLFKKYTGVTPSQYRH 42
YdeE COG3708
Predicted transcriptional regulator YdeE, contains AraC-type DNA-binding domain [Transcription] ...
 134-287 9.56e-07

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


Pssm-ID: 442922  Cd Length: 157  Bit Score: 47.71  E-value: 9.56e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742 134 MEIKIVDFPQTQVAMLQHRGNPDRVNDSAAKFIAWRKSTSLSP------VHESSTFGIAWDdpATTPADAFRFDICGSIS 207
Cdd:COG3708     1 MEYRIVEKPAFKLVGLSARTSNSDEEANEEIPALWQRFLPEGLaeipnlSNPGGLYGVCTD--YESDEGEFDYLAGVEVS 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742 208 EA--IPEnefGVCSGEIDGGRYAVARHTGSL-DTISATVWAMFRDWLPASGETLRDAPVFFHYLNfiHEVPEHALQTDIY 284
Cdd:COG3708    79 SFdeVPE---GLETLEIPAGTYAVFTHKGPMpEALQETWQYIYSEWLPSSGYERADGPDFEVYDE--RDDPSPDSEVEIW 153


                  ...
gi 1546777742 285 LPL 287
Cdd:COG3708   154 IPI 156
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
20-112 1.93e-06

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 48.13  E-value: 1.93e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742  20 IAQHLDEPLTLEMLSALACCSPYHFHRQFLAFSGQPLYRYIQWLRLRHASWRLAFNPQdKVIDIALDAGFQSPESFSRAF 99
Cdd:PRK13502  185 LANSLECPFALDAFCQQEQCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPL-MISEISMQCGFEDSNYFSVVF 263

                          90
                  ....*....|...
gi 1546777742 100 KNAFGKSPRQFRQ 112
Cdd:PRK13502  264 TRETGMTPSQWRH 276
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
20-112 4.60e-05

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 44.32  E-value: 4.60e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742  20 IAQHLDEPLTLEMLSALACCSPYHFHRQFLAFSGQPLYRYIQWLRLRHASWRLAfNPQDKVIDIALDAGFQSPESFSRAF 99
Cdd:PRK13500  215 LAASLKSPFALDKFCDEASCSERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQ-HSRLLISDISTECGFEDSNYFSVVF 293

                          90
                  ....*....|...
gi 1546777742 100 KNAFGKSPRQFRQ 112
Cdd:PRK13500  294 TRETGMTPSQWRH 306
viru_reg_Rsp NF033869
AraC family transcriptional regulator Rsp; Rsp (repressor of surface proteins), as described ...
 13-130 3.58e-04

AraC family transcriptional regulator Rsp; Rsp (repressor of surface proteins), as described in Staphylococcus aureus, is a large protein with an AraC-like helix-turn-helix DNA-binding domain. Regulatory targets include the accessory gene regulator (agr) operon, which in turn regulates a large number of virulence factors.


Pssm-ID: 411433 [Multi-domain]  Cd Length: 701  Bit Score: 42.01  E-value: 3.58e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1546777742  13 FTTVCDYIAQHLDEPLTLEMLSALACCSPYHFHRQFLAFSGQPLYRYIQWLRLRHASwRLAFNPQDKVIDIALDAGFQSP 92
Cdd:NF033869  149 FINCLTFIHDHISSNLSLRDVAQHCNISESYCSNLFVRYLNMNFKDYFTSLKLCHAI-QLLLSTNHSINAISELSGFSSH 227

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1546777742  93 ESFSRAFKNAFGKSPRQFRQQpdwLNWHQRVPKMTFQE 130
Cdd:NF033869  228 TNFTNQFKNYLNFSPKQFRTL---LSKIDPLPQIHFSS 262
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 20-48 3.75e-03

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: 34.44  E-value: 3.75e-03
                          10        20
                  ....*....|....*....|....*....
gi 1546777742  20 IAQHLDEPLTLEMLSALACCSPYHFHRQF 48
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLF 29
 
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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