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Conserved domains on  [gi|1376712954|gb|PTP08589|]
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Fis family transcriptional regulator [Vibrio splendidus]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 11454391)

helix-turn-helix (HTH) domain-containing protein with an AraC family HTH domain, binds DNA and may function as a transcriptional regulator

CATH:  1.10.10.60
Gene Ontology:  GO:0003700|GO:0003677
PubMed:  10473770|15808743|8831795

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
90-338 3.61e-24

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


:

Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 99.47  E-value: 3.61e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1376712954  90 MLTAPDLTSFCQLLSRYSIHIHPLLKIFSRETESGEVELWGVTPEYIDETTLMTHISLGLYFSIMIKLVRRYLNAPNQKL 169
Cdd:COG2207     2 RLLILLLLLLLLLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLL 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1376712954 170 AIHIHKNTIGDEFLSIYERVFNVEMKEGFPARYLLFPNDLVQAKPRQFQADFHAELVRIADQQMEKTLKTNLIYKVNETF 249
Cdd:COG2207    82 LLALLALLLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLL 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1376712954 250 KVLAVKDTNLDSVANNLHISPRTLNRKLKQQ-GVSFRRLFDKYRLELSMTLLNQNDGNITYVAHELGFSDSSAFSRAFKN 328
Cdd:COG2207   162 LLLLLLLLTLEELARELGLSPRTLSRLFKEEtGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKK 241

                         250
                  ....*....|
gi 1376712954 329 WTGHSPTELR 338
Cdd:COG2207   242 RFGVTPSEYR 251
 
Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
90-338 3.61e-24

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 99.47  E-value: 3.61e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1376712954  90 MLTAPDLTSFCQLLSRYSIHIHPLLKIFSRETESGEVELWGVTPEYIDETTLMTHISLGLYFSIMIKLVRRYLNAPNQKL 169
Cdd:COG2207     2 RLLILLLLLLLLLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLL 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1376712954 170 AIHIHKNTIGDEFLSIYERVFNVEMKEGFPARYLLFPNDLVQAKPRQFQADFHAELVRIADQQMEKTLKTNLIYKVNETF 249
Cdd:COG2207    82 LLALLALLLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLL 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1376712954 250 KVLAVKDTNLDSVANNLHISPRTLNRKLKQQ-GVSFRRLFDKYRLELSMTLLNQNDGNITYVAHELGFSDSSAFSRAFKN 328
Cdd:COG2207   162 LLLLLLLLTLEELARELGLSPRTLSRLFKEEtGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKK 241

                         250
                  ....*....|
gi 1376712954 329 WTGHSPTELR 338
Cdd:COG2207   242 RFGVTPSEYR 251
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
258-338 4.79e-22

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 88.38  E-value: 4.79e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1376712954  258 NLDSVANNLHISPRTLNRKLKQQ-GVSFRRLFDKYRLELSMTLLNQNDGNITYVAHELGFSDSSAFSRAFKNWTGHSPTE 336
Cdd:smart00342   3 TLEDLAEALGVSPRHLQRLFKKEtGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPSE 82


                   ..
gi 1376712954  337 LR 338
Cdd:smart00342  83 YR 84
HTH_18 pfam12833
Helix-turn-helix domain;
262-338 2.27e-19

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 81.10  E-value: 2.27e-19
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1376712954 262 VANNLHISPRTLNRKLKQQ-GVSFRRLFDKYRLELSMTLLNQNDG-NITYVAHELGFSDSSAFSRAFKNWTGHSPTELR 338
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRElGLSPKEYLRRLRLERARRLLLEDTGlSVAEIALALGFSDASHFSRAFRRLFGLTPSEYR 79
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
255-339 7.96e-12

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 64.70  E-value: 7.96e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1376712954 255 KDTNLDSVANNLHISPRTLNRKLKQQ-GVSFRRLFDKYRLELSMTLLNQNDGNITYVAHELGFSDSSAFSRAFKNWTGHS 333
Cdd:PRK13503  186 EEVNWEALADQFSLSLRTLHRQLKQQtGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDSNHFSTLFRREFSWS 265


                  ....*.
gi 1376712954 334 PTELRS 339
Cdd:PRK13503  266 PRDIRQ 271
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 221-338 1.10e-07

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: 52.76  E-value: 1.10e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1376712954 221 FHAELVRIADQQMEKTLKTNLIYKVNETFKVLAVKDtnldsVANNLHISPRTLNRKLKQQ-GVSFRRLFDKYRLELSMTL 299
Cdd:TIGR04094 271 FTELLHEISINHHSPLIRAVIQYINLNLYDPLKVEE-----IAKQFFMSESKLRKLFKKEmGISIQEYISKRKIEEAKYL 345

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1376712954 300 LNQNDgNITYVAHELGFSDSSAFSRAFKNWTGHSPTELR 338
Cdd:TIGR04094 346 LRSQI-PVSEVSNELGFYDLSHFSRTFKKHTGVSPKQYQ 383
 
Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
90-338 3.61e-24

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 99.47  E-value: 3.61e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1376712954  90 MLTAPDLTSFCQLLSRYSIHIHPLLKIFSRETESGEVELWGVTPEYIDETTLMTHISLGLYFSIMIKLVRRYLNAPNQKL 169
Cdd:COG2207     2 RLLILLLLLLLLLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLL 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1376712954 170 AIHIHKNTIGDEFLSIYERVFNVEMKEGFPARYLLFPNDLVQAKPRQFQADFHAELVRIADQQMEKTLKTNLIYKVNETF 249
Cdd:COG2207    82 LLALLALLLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLL 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1376712954 250 KVLAVKDTNLDSVANNLHISPRTLNRKLKQQ-GVSFRRLFDKYRLELSMTLLNQNDGNITYVAHELGFSDSSAFSRAFKN 328
Cdd:COG2207   162 LLLLLLLLTLEELARELGLSPRTLSRLFKEEtGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKK 241

                         250
                  ....*....|
gi 1376712954 329 WTGHSPTELR 338
Cdd:COG2207   242 RFGVTPSEYR 251
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
258-338 4.79e-22

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 88.38  E-value: 4.79e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1376712954  258 NLDSVANNLHISPRTLNRKLKQQ-GVSFRRLFDKYRLELSMTLLNQNDGNITYVAHELGFSDSSAFSRAFKNWTGHSPTE 336
Cdd:smart00342   3 TLEDLAEALGVSPRHLQRLFKKEtGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPSE 82


                   ..
gi 1376712954  337 LR 338
Cdd:smart00342  83 YR 84
HTH_18 pfam12833
Helix-turn-helix domain;
262-338 2.27e-19

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 81.10  E-value: 2.27e-19
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1376712954 262 VANNLHISPRTLNRKLKQQ-GVSFRRLFDKYRLELSMTLLNQNDG-NITYVAHELGFSDSSAFSRAFKNWTGHSPTELR 338
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRElGLSPKEYLRRLRLERARRLLLEDTGlSVAEIALALGFSDASHFSRAFRRLFGLTPSEYR 79
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 259-338 8.64e-14

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: 70.96  E-value: 8.64e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1376712954 259 LDSVANNLHISPRTLNRKLKQQ-GVSFRRLFDKYRLELSMTLLNQNDGNITYVAHELGFSDSSAFSRAFKNWTGHSPTEL 337
Cdd:COG4977   229 VDELARRAGMSPRTLERRFRAAtGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSASHFRRAFRRRFGVSPSAY 308


                  .
gi 1376712954 338 R 338
Cdd:COG4977   309 R 309
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 253-338 8.99e-13

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: 68.16  E-value: 8.99e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1376712954 253 AVKDTNLDSVANNLHISPRTLNRKLKQQ-GVSFRRLFDKYRLELSMTLLNQnDGNITYVAHELGFSDSSAFSRAFKNWTG 331
Cdd:COG2169    97 AEDRPSLEDLAARLGLSPRHLRRLFKAHtGVTPKAYARARRLLRARQLLQT-GLSVTDAAYAAGFGSLSRFYEAFKKLLG 175


                  ....*..
gi 1376712954 332 HSPTELR 338
Cdd:COG2169   176 MTPSAYR 182
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
255-339 7.96e-12

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 64.70  E-value: 7.96e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1376712954 255 KDTNLDSVANNLHISPRTLNRKLKQQ-GVSFRRLFDKYRLELSMTLLNQNDGNITYVAHELGFSDSSAFSRAFKNWTGHS 333
Cdd:PRK13503  186 EEVNWEALADQFSLSLRTLHRQLKQQtGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDSNHFSTLFRREFSWS 265


                  ....*.
gi 1376712954 334 PTELRS 339
Cdd:PRK13503  266 PRDIRQ 271
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 250-339 1.47e-10

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 61.20  E-value: 1.47e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1376712954 250 KVLAVKDTNL-------DSVANNLHISPRTLNRKLKQQGVSFRRLFDKYRLELSMTLLNQ--NDGNITYVAHELGFSDSS 320
Cdd:PRK09685  201 KVVALIDQSIqeeilrpEWIAGELGISVRSLYRLFAEQGLVVAQYIRNRRLDRCADDLRPaaDDEKITSIAYKWGFSDSS 280

                          90
                  ....*....|....*....
gi 1376712954 321 AFSRAFKNWTGHSPTELRS 339
Cdd:PRK09685  281 HFSTAFKQRFGVSPGEYRR 299
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 221-338 1.10e-07

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: 52.76  E-value: 1.10e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1376712954 221 FHAELVRIADQQMEKTLKTNLIYKVNETFKVLAVKDtnldsVANNLHISPRTLNRKLKQQ-GVSFRRLFDKYRLELSMTL 299
Cdd:TIGR04094 271 FTELLHEISINHHSPLIRAVIQYINLNLYDPLKVEE-----IAKQFFMSESKLRKLFKKEmGISIQEYISKRKIEEAKYL 345

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1376712954 300 LNQNDgNITYVAHELGFSDSSAFSRAFKNWTGHSPTELR 338
Cdd:TIGR04094 346 LRSQI-PVSEVSNELGFYDLSHFSRTFKKHTGVSPKQYQ 383
PRK15186 PRK15186
AraC family transcriptional regulator; Provisional
 259-339 2.97e-07

AraC family transcriptional regulator; Provisional


Pssm-ID: 185108 [Multi-domain]  Cd Length: 291  Bit Score: 51.22  E-value: 2.97e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1376712954 259 LDSVANNLHISPRTLNRKLKQQGVSFRRLFDKYRLELSMTLLNQNDGNITYVAHELGFSDSSAFSRAFKNWTGHSPTELR 338
Cdd:PRK15186  200 LKDISDSLYMSCSTLKRKLKQENTSFSEVYLNARMNKATKLLRNSEYNITRVAYMCGYDSASYFTCVFKKHFKTTPSEFL 279


                  .
gi 1376712954 339 S 339
Cdd:PRK15186  280 A 280
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
259-338 4.24e-07

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 50.74  E-value: 4.24e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1376712954 259 LDSVANNLHISPRTLNRKLKQQ-GVSFRRLFDKYRLELSMTLLNQNDGNITYVAHELGFSDSSAFSRAFKNWTGHSPTEL 337
Cdd:PRK10572  202 IESVAQHVCLSPSRLAHLFRQQlGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQLYFSRVFKKCTGASPSEF 281


                  .
gi 1376712954 338 R 338
Cdd:PRK10572  282 R 282
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
 238-335 5.68e-07

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 50.38  E-value: 5.68e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1376712954 238 KTNLIYKVNETFKVLAVKDTNLDSVANNLHISPRTLNRKLKQQGVSFRRLFDKYRLELSMTLLNQNDGNITYVAHELGFS 317
Cdd:PRK15185  204 QITLKERVYNIISSSPSRQWKLTDVADHIFMSTSTLKRKLAEEGTSFSDIYLSARMNQAAKLLRIGNHNVNAVALKCGYD 283

                          90
                  ....*....|....*...
gi 1376712954 318 DSSAFSRAFKNWTGHSPT 335
Cdd:PRK15185  284 STSYFIQCFKKYFKTTPS 301
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 246-336 3.95e-06

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 47.61  E-value: 3.95e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1376712954 246 NETFKVLAVKDTN------LDSVANNLHISPRTLNRKLKQQGVSFRRLFDKYRLELSMTLLNQNDGNITYVAHELGFSDS 319
Cdd:PRK09978  142 NMRTRVCTVINNNiahewtLARIASELLMSPSLLKKKLREEETSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSV 221

                          90
                  ....*....|....*..
gi 1376712954 320 SAFSRAFKNWTGHSPTE 336
Cdd:PRK09978  222 SYFIYVFRNYYGMTPTE 238
PRK09940 PRK09940
transcriptional regulator YdeO; Provisional
 259-334 2.02e-04

transcriptional regulator YdeO; Provisional


Pssm-ID: 182157 [Multi-domain]  Cd Length: 253  Bit Score: 42.38  E-value: 2.02e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1376712954 259 LDSVANNLHISPRTLNRKLKQQGVSFRRLFDKYRLELSMTLLnQNDGNITYVAHELGFSDSSAFSRAFKNWTGHSP 334
Cdd:PRK09940  153 LKDICDCLYISESLLKKKLKQEQTTFSQILLDARMQHAKNLI-RVEGSVNKIAEQCGYASTSYFIYAFRKHFGNSP 227
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 302-338 4.28e-04

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: 37.52  E-value: 4.28e-04
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 1376712954 302 QNDGNITYVAHELGFSdSSAFSRAFKNWTGHSPTELR 338
Cdd:pfam00165   6 STNLTIADIADELGFS-RSYFSRLFKKYTGVTPSQYR 41
PRK15044 PRK15044
transcriptional regulator SirC; Provisional
 262-327 1.23e-03

transcriptional regulator SirC; Provisional


Pssm-ID: 185004 [Multi-domain]  Cd Length: 295  Bit Score: 40.02  E-value: 1.23e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1376712954 262 VANNLHISPRTLNRKLKQQGVSFRRLFDKYRLELSMTLLNQNDGNITYVAHELGFSDSSAFSRAFK 327
Cdd:PRK15044  214 VAGKLFMSVSSLKRKLAAEEVSFSKIYLDARMNQAIKLLRMGAGNISQVATMCGYDTPSYFIAIFK 279
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
259-338 4.99e-03

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 38.11  E-value: 4.99e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1376712954 259 LDSVANNLHISPRTLNRKLKQQ-GVSFRRLFDKYRLELSMTLLNQNDGNITYVAHELGFSDSSAFSRAFKNWTGHSPTEL 337
Cdd:PRK13502  195 LDAFCQQEQCSERVLRQQFRAQtGMTINQYLRQVRICHAQYLLQHSPLMISEISMQCGFEDSNYFSVVFTRETGMTPSQW 274


                  .
gi 1376712954 338 R 338
Cdd:PRK13502  275 R 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.
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