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Conserved domains on  [gi|1293299383|gb|AUA21463|]
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Fis family transcriptional regulator [Clostridioides difficile]

Protein Classification

GAF domain-containing protein( domain architecture ID 10005630)

GAF domain-containing protein; the GAF domain is a small-molecule-binding domain found in proteins including phytochromes, adenylyl and guanylyl cyclases, and cGMP-specific phosphodiesterases

CATH:  3.30.450.40
Gene Ontology:  GO:0005515
PubMed:  9433123|11032796|20004158
SCOP:  4001852

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RocR super family cl34674
RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis ...
 148-196 5.54e-11

RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis domains [Transcription, Signal transduction mechanisms];


The actual alignment was detected with superfamily member COG3829:

Pssm-ID: 443041 [Multi-domain]  Cd Length: 448  Bit Score: 60.56  E-value: 5.54e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1293299383 148 KTIDDLEREAIENAIKKYGSNtegMKKVAEALNIGIATLYRKVKKFNIK 196
Cdd:COG3829   403 EALEEVEKELIEEALEKTGGN---KSKAAKALGISRSTLYRKLKKYGIK 448
GAF COG2203
GAF domain [Signal transduction mechanisms];
10-162 1.99e-05

GAF domain [Signal transduction mechanisms];


:

Pssm-ID: 441805 [Multi-domain]  Cd Length: 712  Bit Score: 44.41  E-value: 1.99e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1293299383  10 VQSICENISNVLDVDVTLV------TKDLTRIAGTGIFRGKIGETISEKSVYSLVLKDGKSYVIN-----KEIEENCNKC 78
Cdd:COG2203   212 LQRILELAGELLGADRGAIllvdedGGELELVAAPGLPEEELGRLPLGEGLAGRALRTGEPVVVNdastdPRFAPSLREL 291

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1293299383  79 ANRENCKELadICTPVKMGEHILGILGIA-----AFNEEQKEkilskdkeltaFVRSMSDLISFKLD--ELYKQEVKTID 151
Cdd:COG2203   292 LLALGIRSL--LCVPLLVDGRLIGVLALYskeprAFTEEDLE-----------LLEALADQAAIAIEraRLYEALEAALA 358

                         170
                  ....*....|.
gi 1293299383 152 DLEREAIENAI 162
Cdd:COG2203   359 ALLQELALLRL 369
 
Name Accession Description Interval E-value
RocR COG3829
RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis ...
 148-196 5.54e-11

RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis domains [Transcription, Signal transduction mechanisms];


Pssm-ID: 443041 [Multi-domain]  Cd Length: 448  Bit Score: 60.56  E-value: 5.54e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1293299383 148 KTIDDLEREAIENAIKKYGSNtegMKKVAEALNIGIATLYRKVKKFNIK 196
Cdd:COG3829   403 EALEEVEKELIEEALEKTGGN---KSKAAKALGISRSTLYRKLKKYGIK 448
GAF COG2203
GAF domain [Signal transduction mechanisms];
10-162 1.99e-05

GAF domain [Signal transduction mechanisms];


Pssm-ID: 441805 [Multi-domain]  Cd Length: 712  Bit Score: 44.41  E-value: 1.99e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1293299383  10 VQSICENISNVLDVDVTLV------TKDLTRIAGTGIFRGKIGETISEKSVYSLVLKDGKSYVIN-----KEIEENCNKC 78
Cdd:COG2203   212 LQRILELAGELLGADRGAIllvdedGGELELVAAPGLPEEELGRLPLGEGLAGRALRTGEPVVVNdastdPRFAPSLREL 291

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1293299383  79 ANRENCKELadICTPVKMGEHILGILGIA-----AFNEEQKEkilskdkeltaFVRSMSDLISFKLD--ELYKQEVKTID 151
Cdd:COG2203   292 LLALGIRSL--LCVPLLVDGRLIGVLALYskeprAFTEEDLE-----------LLEALADQAAIAIEraRLYEALEAALA 358

                         170
                  ....*....|.
gi 1293299383 152 DLEREAIENAI 162
Cdd:COG2203   359 ALLQELALLRL 369
PRK11388 PRK11388
DNA-binding transcriptional regulator DhaR; Provisional
 149-195 2.65e-05

DNA-binding transcriptional regulator DhaR; Provisional


Pssm-ID: 183114 [Multi-domain]  Cd Length: 638  Bit Score: 43.90  E-value: 2.65e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1293299383 149 TIDDLEREAIENAIKKygsnTEG-MKKVAEALNIGIATLYRKVKKFNI 195
Cdd:PRK11388  587 SLAELEKEAIINAAQV----CGGrIQEMAALLGIGRTTLWRKMKQHGI 630
HTH_50 pfam18024
Helix-turn-helix domain; The TyrR protein of Haemophilus influenzae is a 36-kD transcription ...
 150-195 1.66e-03

Helix-turn-helix domain; The TyrR protein of Haemophilus influenzae is a 36-kD transcription factor whose major function is to control the expression of genes important in the biosynthesis and transport of aromatic amino acids. This entry represents the C-terminal helix-turn-helix DNA-binding domain of TyrR and related proteins.


Pssm-ID: 407862 [Multi-domain]  Cd Length: 50  Bit Score: 35.08  E-value: 1.66e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1293299383 150 IDDLEREAIENAIKKYGSntegMKKVAEALNIGIATLYRKVKKFNI 195
Cdd:pfam18024   8 VSYIERELIGAAYENYKS----ARKVAKALGLSHTTIANKMKRYGI 49
PHA02938 PHA02938
hypothetical protein; Provisional
 115-180 1.67e-03

hypothetical protein; Provisional


Pssm-ID: 165248  Cd Length: 361  Bit Score: 38.40  E-value: 1.67e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1293299383 115 EKILSKDkeltaFVRSMSdlISFK-LDELYKQEVK-------TIDDLEREAIENAIKKYGSNTEGMKKVAEALN 180
Cdd:PHA02938  135 EAIASKD-----PSAPVS--ASFKcVDDLHKLLEKeaikrgtTASELVRRAIEEFLKKYGNNYEEIKKLYETAK 201
 
Name Accession Description Interval E-value
RocR COG3829
RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis ...
 148-196 5.54e-11

RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis domains [Transcription, Signal transduction mechanisms];


Pssm-ID: 443041 [Multi-domain]  Cd Length: 448  Bit Score: 60.56  E-value: 5.54e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1293299383 148 KTIDDLEREAIENAIKKYGSNtegMKKVAEALNIGIATLYRKVKKFNIK 196
Cdd:COG3829   403 EALEEVEKELIEEALEKTGGN---KSKAAKALGISRSTLYRKLKKYGIK 448
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 148-194 1.76e-07

DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, and a Fis-type DNA-binding domains [Signal transduction mechanisms];


Pssm-ID: 441806 [Multi-domain]  Cd Length: 418  Bit Score: 50.35  E-value: 1.76e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1293299383 148 KTIDDLEREAIENAIKKYGSNtegMKKVAEALNIGIATLYRKVKKFN 194
Cdd:COG2204   375 EALEEVERELIERALEETGGN---VSRAAELLGISRRTLYRKLKKYG 418
AcoR COG3284
Transcriptional regulator DhaR of acetoin/glycerol metabolism [Transcription];
149-194 1.66e-06

Transcriptional regulator DhaR of acetoin/glycerol metabolism [Transcription];


Pssm-ID: 442514 [Multi-domain]  Cd Length: 625  Bit Score: 47.59  E-value: 1.66e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1293299383 149 TIDDLEREAIENAIKKYGSNtegMKKVAEALNIGIATLYRKVKKFN 194
Cdd:COG3284   583 SLEEAERDAILRALRACGGN---VSAAARALGISRSTLYRKLKRYG 625
FhlA COG3604
FhlA-type transcriptional regulator, contains GAF, AAA-type ATPase, and DNA-binding Fis ...
 126-196 3.58e-06

FhlA-type transcriptional regulator, contains GAF, AAA-type ATPase, and DNA-binding Fis domains [Transcription, Signal transduction mechanisms];


Pssm-ID: 442823 [Multi-domain]  Cd Length: 338  Bit Score: 46.38  E-value: 3.58e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1293299383 126 AFVRSMSDLISfkLDELYKQEVKTIDDLEREAIENAIKKYGSNtegMKKVAEALNIGIATLYRKVKKFNIK 196
Cdd:COG3604   273 AVILAEGGVLD--ADDLAPGSREALEEVEREHILEALERTGGN---IAGAARLLGLTPSTLRSRMKKLGIK 338
GAF COG2203
GAF domain [Signal transduction mechanisms];
10-162 1.99e-05

GAF domain [Signal transduction mechanisms];


Pssm-ID: 441805 [Multi-domain]  Cd Length: 712  Bit Score: 44.41  E-value: 1.99e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1293299383  10 VQSICENISNVLDVDVTLV------TKDLTRIAGTGIFRGKIGETISEKSVYSLVLKDGKSYVIN-----KEIEENCNKC 78
Cdd:COG2203   212 LQRILELAGELLGADRGAIllvdedGGELELVAAPGLPEEELGRLPLGEGLAGRALRTGEPVVVNdastdPRFAPSLREL 291

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1293299383  79 ANRENCKELadICTPVKMGEHILGILGIA-----AFNEEQKEkilskdkeltaFVRSMSDLISFKLD--ELYKQEVKTID 151
Cdd:COG2203   292 LLALGIRSL--LCVPLLVDGRLIGVLALYskeprAFTEEDLE-----------LLEALADQAAIAIEraRLYEALEAALA 358

                         170
                  ....*....|.
gi 1293299383 152 DLEREAIENAI 162
Cdd:COG2203   359 ALLQELALLRL 369
PRK11388 PRK11388
DNA-binding transcriptional regulator DhaR; Provisional
 149-195 2.65e-05

DNA-binding transcriptional regulator DhaR; Provisional


Pssm-ID: 183114 [Multi-domain]  Cd Length: 638  Bit Score: 43.90  E-value: 2.65e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1293299383 149 TIDDLEREAIENAIKKygsnTEG-MKKVAEALNIGIATLYRKVKKFNI 195
Cdd:PRK11388  587 SLAELEKEAIINAAQV----CGGrIQEMAALLGIGRTTLWRKMKQHGI 630
HTH_50 pfam18024
Helix-turn-helix domain; The TyrR protein of Haemophilus influenzae is a 36-kD transcription ...
 150-195 1.66e-03

Helix-turn-helix domain; The TyrR protein of Haemophilus influenzae is a 36-kD transcription factor whose major function is to control the expression of genes important in the biosynthesis and transport of aromatic amino acids. This entry represents the C-terminal helix-turn-helix DNA-binding domain of TyrR and related proteins.


Pssm-ID: 407862 [Multi-domain]  Cd Length: 50  Bit Score: 35.08  E-value: 1.66e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1293299383 150 IDDLEREAIENAIKKYGSntegMKKVAEALNIGIATLYRKVKKFNI 195
Cdd:pfam18024   8 VSYIERELIGAAYENYKS----ARKVAKALGLSHTTIANKMKRYGI 49
PHA02938 PHA02938
hypothetical protein; Provisional
 115-180 1.67e-03

hypothetical protein; Provisional


Pssm-ID: 165248  Cd Length: 361  Bit Score: 38.40  E-value: 1.67e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1293299383 115 EKILSKDkeltaFVRSMSdlISFK-LDELYKQEVK-------TIDDLEREAIENAIKKYGSNTEGMKKVAEALN 180
Cdd:PHA02938  135 EAIASKD-----PSAPVS--ASFKcVDDLHKLLEKeaikrgtTASELVRRAIEEFLKKYGNNYEEIKKLYETAK 201
 
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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