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MULTISPECIES: RNA polymerase sporulation sigma factor SigH [Bacillaceae]

Protein Classification

sigma-70 family RNA polymerase sigma factor( domain architecture ID 11483241)

sigma-70 family RNA polymerase sigma factor such as RNA polymerase sporulation sigma factor SigH, which is involved in the transition to post-exponential phase in the beginning of sporulation and is also required for the transcription of several stationary phase genes

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK08295 PRK08295
RNA polymerase sporulation sigma factor SigH;
8-215 9.39e-133

RNA polymerase sporulation sigma factor SigH;


:

Pssm-ID: 181361 [Multi-domain]  Cd Length: 208  Bit Score: 371.16  E-value: 9.39e-133
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934   8 KLHAHFEQQEDETVVDLVHKGDIDALEYLIHKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDFREDKLTSFKAF 87
Cdd:PRK08295   1 LRMKDYDELEDEELVELARSGDKEALEYLIEKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDYDKDKLSSFKSF 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  88 AELCITRQIITAIKTATRQKHIPLNSYVSLDKPIYDEESDRTLMDVISGTKVANPEELLINREKFDDIELKMAELLSDLE 167
Cdd:PRK08295  81 AELCITRQIITAIKTANRQKHIPLNSYVSLDKPIYDEESDRTLLDVISEAKVTDPEELIISKEELEDIEEKIEELLSELE 160

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 502819934 168 RKVLVLYLDGQSYQEISEELNRHVKSIDNALQRVKRKLERYLEIREIT 215
Cdd:PRK08295 161 KEVLELYLDGKSYQEIAEELNRHVKSIDNALQRVKRKLEKYLENREIT 208
 
Name Accession Description Interval E-value
PRK08295 PRK08295
RNA polymerase sporulation sigma factor SigH;
8-215 9.39e-133

RNA polymerase sporulation sigma factor SigH;


Pssm-ID: 181361 [Multi-domain]  Cd Length: 208  Bit Score: 371.16  E-value: 9.39e-133
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934   8 KLHAHFEQQEDETVVDLVHKGDIDALEYLIHKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDFREDKLTSFKAF 87
Cdd:PRK08295   1 LRMKDYDELEDEELVELARSGDKEALEYLIEKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDYDKDKLSSFKSF 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  88 AELCITRQIITAIKTATRQKHIPLNSYVSLDKPIYDEESDRTLMDVISGTKVANPEELLINREKFDDIELKMAELLSDLE 167
Cdd:PRK08295  81 AELCITRQIITAIKTANRQKHIPLNSYVSLDKPIYDEESDRTLLDVISEAKVTDPEELIISKEELEDIEEKIEELLSELE 160

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 502819934 168 RKVLVLYLDGQSYQEISEELNRHVKSIDNALQRVKRKLERYLEIREIT 215
Cdd:PRK08295 161 KEVLELYLDGKSYQEIAEELNRHVKSIDNALQRVKRKLEKYLENREIT 208
spore_sigH TIGR02859
RNA polymerase sigma-H factor; Members of this protein family are RNA polymerase sigma-H ...
 13-210 7.16e-123

RNA polymerase sigma-H factor; Members of this protein family are RNA polymerase sigma-H factor for sporulation in endospore-forming bacteria. This protein is also called Sigma-30 and SigH. Although rather close homologs in Listeria score well against this model, Listeria does not form spores and the role of the related sigma factor in that genus is in doubt. [Transcription, Transcription factors, Cellular processes, Sporulation and germination]


Pssm-ID: 131906 [Multi-domain]  Cd Length: 198  Bit Score: 346.02  E-value: 7.16e-123
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934   13 FEQQEDETVVDLVHKGDIDALEYLIHKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDFREDKLTSFKAFAELCI 92
Cdd:TIGR02859   1 FKQLEDEEIVELARQGNTHALEYLINKYKNFVRAKARSYFLIGADKEDIIQEGMIGLYKAIRDFRPDKLSSFKAFAELCV 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934   93 TRQIITAIKTATRQKHIPLNSYVSLDKPIYDEESDRTLMDVISGTKVANPEELLINREKFDDIELKMAELLSDLERKVLV 172
Cdd:TIGR02859  81 TRQIITAIKTATRQKHIPLNSYVSLNKPIYDEESDRTLLDVISGAKVTDPEELIISQEEYGDIESKMNELLSDLEWKVLQ 160

                         170       180       190
                  ....*....|....*....|....*....|....*...
gi 502819934  173 LYLDGQSYQEISEELNRHVKSIDNALQRVKRKLERYLE 210
Cdd:TIGR02859 161 SYLDGKSYQEIACDLNRHVKSIDNALQRVKRKLEKYLE 198
RpoE COG1595
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 16-215 3.97e-24

DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; DNA-directed RNA polymerase specialized sigma subunit, sigma24 family is part of the Pathway/BioSystem: RNA polymerase


Pssm-ID: 441203 [Multi-domain]  Cd Length: 181  Bit Score: 94.29  E-value: 3.97e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  16 QEDETVVDLVHKGDIDALEYLIHKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDFREDklTSFKAFAELCITRQ 95
Cdd:COG1595    2 SSDEELLERLRAGDEAAFEELYERYRPRLYRYARRLLGDRADAEDLVQETFLRLWRKLDSFRGR--GSFRAWLYRIARNL 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  96 IITAIKTATRQKHIplnsyvsLDKPIYDEESDrtlmdvisgtkVANPEELLINREKFDDIELKMAElLSDLERKVLVL-Y 174
Cdd:COG1595   80 AIDHLRKRRRRREL-------LDELAEELPDE-----------AADPEEALEAEELLEALLAALER-LPPRQREVLVLrY 140

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|.
gi 502819934 175 LDGQSYQEISEELNRHVKSIDNALQRVKRKLERYLEIREIT 215
Cdd:COG1595  141 LEGLSYAEIAEILGISEGTVKSRLSRARKKLREALEEEGAL 181
Sigma70_r2 pfam04542
Sigma-70 region 2; Region 2 of sigma-70 is the most conserved region of the entire protein. ...
 36-105 5.95e-15

Sigma-70 region 2; Region 2 of sigma-70 is the most conserved region of the entire protein. All members of this class of sigma-factor contain region 2. The high conservation is due to region 2 containing both the -10 promoter recognition helix and the primary core RNA polymerase binding determinant. The core binding helix, interacts with the clamp domain of the largest polymerase subunit, beta prime. The aromatic residues of the recognition helix, found at the C-terminus of this domain are though to mediate strand separation, thereby allowing transcription initiation.


Pssm-ID: 427998 [Multi-domain]  Cd Length: 71  Bit Score: 66.84  E-value: 5.95e-15
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934   36 LIHKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDFREDKLTSFKAFAELCITRQIITAIKTATR 105
Cdd:pfam04542   1 LVERYLPLVYSLARRYLGDGADAEDLVQEGFLGLWRAIERFDPERGVSFSTWLYTIIRNAIIDYLRKQRR 70
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 160-205 4.07e-06

helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 42.90  E-value: 4.07e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*.
gi 502819934   160 AELLSDLERKVLVLYLDGQSYQEISEELNRHVKSIDNALQRVKRKL 205
Cdd:smart00421   1 LASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKL 46
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 163-205 8.45e-05

C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many are active as homodimers. Many are two domain proteins in which the DNA binding property of the C-terminal DNA binding domain is modulated by modifications of the N-terminal domain. For example in the case of Lux R which participates in the regulation of gene expression in response to fluctuations in cell-population density (quorum-sensing), a signaling molecule, the pheromone Acyl HSL (N-acyl derivatives of homoserine lactone), binds to the N-terminal domain and leads to LuxR dimerization. For others phophorylation of the N-terminal domain leads to multimerization, for example Escherichia coli NarL and Sinorhizobium melilot FixJ. NarL controls gene expression of many respiratory-related operons when environmental nitrate or nitrite is present under anerobic conditions. FixJ is involved in the transcriptional activation of nitrogen fixation genes. The group also includes small proteins which lack an N-terminal signaling domain, such as Bacillus subtilis GerE. GerE is dimeric and acts in conjunction with sigmaK as an activator or a repressor modulating the expression of various genes in particular those encoding the spore-coat. These LuxR family regulators may share a similar organization of their target binding sites. For example the LuxR dimer binds the lux box, a 20bp inverted repeat, GerE dimers bind two 12bp consensus sequences in inverted orientation having the central four bases overlap, and the NarL dimer binds two 7bp inverted repeats separated by 2 bp.


Pssm-ID: 99777 [Multi-domain]  Cd Length: 57  Bit Score: 39.05  E-value: 8.45e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 502819934 163 LSDLERKVLVLYLDGQSYQEISEELNRHVKSIDNALQRVKRKL 205
Cdd:cd06170    1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKL 43
 
Name Accession Description Interval E-value
PRK08295 PRK08295
RNA polymerase sporulation sigma factor SigH;
8-215 9.39e-133

RNA polymerase sporulation sigma factor SigH;


Pssm-ID: 181361 [Multi-domain]  Cd Length: 208  Bit Score: 371.16  E-value: 9.39e-133
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934   8 KLHAHFEQQEDETVVDLVHKGDIDALEYLIHKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDFREDKLTSFKAF 87
Cdd:PRK08295   1 LRMKDYDELEDEELVELARSGDKEALEYLIEKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDYDKDKLSSFKSF 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  88 AELCITRQIITAIKTATRQKHIPLNSYVSLDKPIYDEESDRTLMDVISGTKVANPEELLINREKFDDIELKMAELLSDLE 167
Cdd:PRK08295  81 AELCITRQIITAIKTANRQKHIPLNSYVSLDKPIYDEESDRTLLDVISEAKVTDPEELIISKEELEDIEEKIEELLSELE 160

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 502819934 168 RKVLVLYLDGQSYQEISEELNRHVKSIDNALQRVKRKLERYLEIREIT 215
Cdd:PRK08295 161 KEVLELYLDGKSYQEIAEELNRHVKSIDNALQRVKRKLEKYLENREIT 208
spore_sigH TIGR02859
RNA polymerase sigma-H factor; Members of this protein family are RNA polymerase sigma-H ...
 13-210 7.16e-123

RNA polymerase sigma-H factor; Members of this protein family are RNA polymerase sigma-H factor for sporulation in endospore-forming bacteria. This protein is also called Sigma-30 and SigH. Although rather close homologs in Listeria score well against this model, Listeria does not form spores and the role of the related sigma factor in that genus is in doubt. [Transcription, Transcription factors, Cellular processes, Sporulation and germination]


Pssm-ID: 131906 [Multi-domain]  Cd Length: 198  Bit Score: 346.02  E-value: 7.16e-123
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934   13 FEQQEDETVVDLVHKGDIDALEYLIHKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDFREDKLTSFKAFAELCI 92
Cdd:TIGR02859   1 FKQLEDEEIVELARQGNTHALEYLINKYKNFVRAKARSYFLIGADKEDIIQEGMIGLYKAIRDFRPDKLSSFKAFAELCV 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934   93 TRQIITAIKTATRQKHIPLNSYVSLDKPIYDEESDRTLMDVISGTKVANPEELLINREKFDDIELKMAELLSDLERKVLV 172
Cdd:TIGR02859  81 TRQIITAIKTATRQKHIPLNSYVSLNKPIYDEESDRTLLDVISGAKVTDPEELIISQEEYGDIESKMNELLSDLEWKVLQ 160

                         170       180       190
                  ....*....|....*....|....*....|....*...
gi 502819934  173 LYLDGQSYQEISEELNRHVKSIDNALQRVKRKLERYLE 210
Cdd:TIGR02859 161 SYLDGKSYQEIACDLNRHVKSIDNALQRVKRKLEKYLE 198
RpoE COG1595
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 16-215 3.97e-24

DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; DNA-directed RNA polymerase specialized sigma subunit, sigma24 family is part of the Pathway/BioSystem: RNA polymerase


Pssm-ID: 441203 [Multi-domain]  Cd Length: 181  Bit Score: 94.29  E-value: 3.97e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  16 QEDETVVDLVHKGDIDALEYLIHKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDFREDklTSFKAFAELCITRQ 95
Cdd:COG1595    2 SSDEELLERLRAGDEAAFEELYERYRPRLYRYARRLLGDRADAEDLVQETFLRLWRKLDSFRGR--GSFRAWLYRIARNL 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  96 IITAIKTATRQKHIplnsyvsLDKPIYDEESDrtlmdvisgtkVANPEELLINREKFDDIELKMAElLSDLERKVLVL-Y 174
Cdd:COG1595   80 AIDHLRKRRRRREL-------LDELAEELPDE-----------AADPEEALEAEELLEALLAALER-LPPRQREVLVLrY 140

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|.
gi 502819934 175 LDGQSYQEISEELNRHVKSIDNALQRVKRKLERYLEIREIT 215
Cdd:COG1595  141 LEGLSYAEIAEILGISEGTVKSRLSRARKKLREALEEEGAL 181
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 31-209 2.62e-23

RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several Pfam models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.


Pssm-ID: 274357 [Multi-domain]  Cd Length: 158  Bit Score: 91.25  E-value: 2.62e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934   31 DALEYLIHKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDFREDKltSFKAFAELCITRQIITAIKtatRQKHIP 110
Cdd:TIGR02937   1 EAFEELYERYLPLVYRYARRYLGDDADAEDLVQEAFLKLLEALDRFDPEG--SFKAWLFRIARNLILDYLR---RKRRLR 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  111 LNSYVSLDKPIYDEesdrtlmdvisgtkvaNPEELLINREKFDDIELKMAElLSDLERKVLVL-YLDGQSYQEISEELNR 189
Cdd:TIGR02937  76 RELDLLEELLDSDP----------------SPEEELEQEEEREALREALEK-LPEREREVLVLrYLEGLSYKEIAEILGI 138

                         170       180
                  ....*....|....*....|
gi 502819934  190 HVKSIDNALQRVKRKLERYL 209
Cdd:TIGR02937 139 SVGTVKRRLKRARKKLRELL 158
Sigma70_r2 pfam04542
Sigma-70 region 2; Region 2 of sigma-70 is the most conserved region of the entire protein. ...
 36-105 5.95e-15

Sigma-70 region 2; Region 2 of sigma-70 is the most conserved region of the entire protein. All members of this class of sigma-factor contain region 2. The high conservation is due to region 2 containing both the -10 promoter recognition helix and the primary core RNA polymerase binding determinant. The core binding helix, interacts with the clamp domain of the largest polymerase subunit, beta prime. The aromatic residues of the recognition helix, found at the C-terminus of this domain are though to mediate strand separation, thereby allowing transcription initiation.


Pssm-ID: 427998 [Multi-domain]  Cd Length: 71  Bit Score: 66.84  E-value: 5.95e-15
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934   36 LIHKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDFREDKLTSFKAFAELCITRQIITAIKTATR 105
Cdd:pfam04542   1 LVERYLPLVYSLARRYLGDGADAEDLVQEGFLGLWRAIERFDPERGVSFSTWLYTIIRNAIIDYLRKQRR 70
PRK09652 PRK09652
RNA polymerase sigma factor RpoE; Provisional
 22-210 4.32e-14

RNA polymerase sigma factor RpoE; Provisional


Pssm-ID: 236608 [Multi-domain]  Cd Length: 182  Bit Score: 67.52  E-value: 4.32e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  22 VDLVHKGDIDALEYLIHKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDFREDklTSFKAFaelcITRqiI---T 98
Cdd:PRK09652   1 VERVQRGDRAAFALLVRRYQPRVKRLLSRLTRDPADAEDLVQETFIKAYRALHSFRGG--AAFYTW----LYR--IarnT 72

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  99 AIKTATRQKHIPLNSYVSLDKPIYDEESDRTlmdvisgTKVANPEELLINREKFDDIELKMAELLSDLeRKVLVL-YLDG 177
Cdd:PRK09652  73 AINYLRKQGRRPPASDVDAEEAEDFDLADAL-------RDISTPENELLSAELEQRVRAAIESLPEEL-RTAITLrEIEG 144

                        170       180       190
                 ....*....|....*....|....*....|....*..
gi 502819934 178 QSYQEISEELN---RHVKS-IDNALQRVKRKLERYLE 210
Cdd:PRK09652 145 LSYEEIAEIMGcpiGTVRSrIFRAREALRAKLQPLLD 181
FliA COG1191
DNA-directed RNA polymerase specialized sigma subunit [Transcription]; DNA-directed RNA ...
 26-207 4.82e-12

DNA-directed RNA polymerase specialized sigma subunit [Transcription]; DNA-directed RNA polymerase specialized sigma subunit is part of the Pathway/BioSystem: RNA polymerase


Pssm-ID: 440804 [Multi-domain]  Cd Length: 236  Bit Score: 62.92  E-value: 4.82e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  26 HKGDIDALEYLIHKYKNFVRAKARSYFL-IGADREDIVQEGMIGLYKAIRDFREDKLTSFKAFAELCITRQII------- 97
Cdd:COG1191   10 QEGDEEAREELIEEYLPLVKKIASRLAGrLPAELDDLIQVGLIGLIEAIDRFDPSKGVSFETYAVPRIRGAILdylrded 89

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  98 ----------TAIKTATR---QKH--------------IPLNSY------------VSLDKPIYDEESdrtLMDVIsgtK 138
Cdd:COG1191   90 wvprsvrelaRKIEEAIEeleQELgreptdeeiaeelgISLEEVqealeaanayqlLSLDEPLEDGDD---LLDLL---E 163

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 502819934 139 VANPEELLINREKFDDIElKMAELLSDLERKVLVL-YLDGQSYQEISEELNRHVKSI----DNALQRVKRKLER 207
Cdd:COG1191  164 SGDPEEELEHEELREALA-EAIEQLPERERLVLSLyYFEELTLKEIAEVLGVSESRVsrlhKKALARLREYLKE 236
algU PRK11923
RNA polymerase sigma factor AlgU; Provisional
 15-210 2.28e-09

RNA polymerase sigma factor AlgU; Provisional


Pssm-ID: 171347 [Multi-domain]  Cd Length: 193  Bit Score: 54.81  E-value: 2.28e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  15 QQEDETVVDLVHKGDIDALEYLIHKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDFREDkltsfKAFAELCITR 94
Cdd:PRK11923   4 QEEDQQLVERVQRGDKRAFDLLVLKYQHKILGLIVRFVHDTAEAQDVAQEAFIKAYRALGNFRGD-----SAFYTWLYRI 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  95 QIITAIKTATRQKHIPLNSYVSLDKPIYDEESDRtLMDvisgtkVANPEELLINREKFDDIELKMAELLSDLERKVLVLY 174
Cdd:PRK11923  79 AINTAKNHLVSRGRRPPDSDVSSEDAEFYDGDHA-LKD------IESPERALLRDEIEGTVHRTIQQLPEDLRTALTLRE 151

                        170       180       190
                 ....*....|....*....|....*....|....*.
gi 502819934 175 LDGQSYQEISEELNRHVKSIDNALQRVKRKLERYLE 210
Cdd:PRK11923 152 FDGLSYEDIASVMQCPVGTVRSRIFRAREAIDKALQ 187
PRK08583 PRK08583
RNA polymerase sigma factor SigB; Validated
 28-110 2.12e-08

RNA polymerase sigma factor SigB; Validated


Pssm-ID: 236306 [Multi-domain]  Cd Length: 257  Bit Score: 52.77  E-value: 2.12e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  28 GDIDALEYLIHKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDFREDKLTSFKAFAELCITRQIITAIKTATRQK 107
Cdd:PRK08583  26 QDEEAQEKLVKHYKNLVESLAYKYSKGQSHHEDLVQVGMVGLLGAIRRYDPSFGRSFEAFAVPTIIGEIKRYLRDKTWSV 105


                 ...
gi 502819934 108 HIP 110
Cdd:PRK08583 106 HVP 108
PRK05803 PRK05803
RNA polymerase sporulation sigma factor SigK;
16-173 5.11e-08

RNA polymerase sporulation sigma factor SigK;


Pssm-ID: 180266 [Multi-domain]  Cd Length: 233  Bit Score: 51.48  E-value: 5.11e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  16 QEDETVVDLVHKGDIDALEYLIHKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDFREDKLTSFKAFAELCITRQ 95
Cdd:PRK05803  34 EEERKYLELMKEGDEEARNILIERNLRLVAHIVKKFENTGEDVDDLISIGTIGLIKAIESFDAGKGTKLATYAARCIENE 113

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  96 IITAIKTATRQKhiplnSYVSLDKPI-YDEE-SDRTLMDVISgtkvANPEELLinrekfDDIELKMAE--------LLSD 165
Cdd:PRK05803 114 ILMHLRNLKKTK-----KEVSLQDPIgVDKEgNEISLIDILG----SEEDDVI------EQVELKMEVeklykkidILDE 178


                 ....*...
gi 502819934 166 LERKVLVL 173
Cdd:PRK05803 179 REKEVIEM 186
PRK13919 PRK13919
putative RNA polymerase sigma E protein; Provisional
 14-211 6.12e-08

putative RNA polymerase sigma E protein; Provisional


Pssm-ID: 184395 [Multi-domain]  Cd Length: 186  Bit Score: 50.68  E-value: 6.12e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  14 EQQEDETVVDLVHKGDIDALEYLIHKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDFrEDKLTSFKAFAeLCIT 93
Cdd:PRK13919   6 ESLSDEALLALVARGEEEALRALFRRYAGAFLALARRMGLDGAAAEDVVQEVFIRVWKKAKEF-DPRRGSARAWL-LALA 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  94 RQiiTAIKTATRQKHIPLnsyvsldkPIYDEESDRTLMDVisgtkvanPEELLINREKFDDIELKMA-ELLSDLERKVL- 171
Cdd:PRK13919  84 HH--AAVDHVRRRAARPQ--------PLEPDEREPEAFDL--------PGPGLDEEGHLDRTRLGRAlKALSPEERRVIe 145

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|
gi 502819934 172 VLYLDGQSYQEISEELNRHVKSIDNalqRVKRKLERYLEI 211
Cdd:PRK13919 146 VLYYQGYTHREAAQLLGLPLGTLKT---RARRALSRLKEV 182
PRK11924 PRK11924
RNA polymerase sigma factor; Provisional
 26-207 2.31e-07

RNA polymerase sigma factor; Provisional


Pssm-ID: 183384 [Multi-domain]  Cd Length: 179  Bit Score: 49.20  E-value: 2.31e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  26 HKGDIDALEYLIHKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDFREDKltSFKAFAeLCITRQIITAI--KTA 103
Cdd:PRK11924   8 ATGDKEAFSELFRPHAPDLLRYARRQLGDRALAEDAVQEAFLRAWRKADLFNGKG--SARTWL-LTIARNVCYDLlrRRR 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934 104 TRQkhiplnsyvsldkpiYDEESDrtLMDVISGTKVANPEELLINREKFDDIElKMAELLSDLERKVLVL-YLDGQSYQE 182
Cdd:PRK11924  85 REK---------------AVLSDD--ALEPEFAETAETPEAALLAKDDLARID-RCLDALPVKQREVFLLrYVEGLSYRE 146

                        170       180
                 ....*....|....*....|....*....
gi 502819934 183 ISEELN---RHVKS-IDNALQRVKRKLER 207
Cdd:PRK11924 147 IAEILGvpvGTVKSrLRRARQLLRECLEA 175
Sigma70_r4_2 pfam08281
Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 ...
 157-205 3.85e-07

Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif.


Pssm-ID: 400535 [Multi-domain]  Cd Length: 54  Bit Score: 45.52  E-value: 3.85e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 502819934  157 LKMAELLSDLERKVLVL-YLDGQSYQEISEELNRHVKSIDNALQRVKRKL 205
Cdd:pfam08281   5 LRALEELPPRQREVFLLrYLEGLSYAEIAELLGISEGTVKSRLSRARKKL 54
RpoD COG0568
DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]; DNA-directed RNA ...
 115-188 3.10e-06

DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]; DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) is part of the Pathway/BioSystem: RNA polymerase


Pssm-ID: 440334 [Multi-domain]  Cd Length: 268  Bit Score: 46.59  E-value: 3.10e-06
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 502819934 115 VSLDKPIyDEESDRTLMDVISGTKVANPEELLINREKFDDIELKMAElLSDLERKVLVLY---LDGQSY--QEISEELN 188
Cdd:COG0568  161 VSLDAPV-GDDEDSELGDLLEDEEAPSPEEALEEELLREELREALDT-LTEREREILRLRfglDDGEPHtlEEIGKEFG 237
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 160-205 4.07e-06

helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 42.90  E-value: 4.07e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*.
gi 502819934   160 AELLSDLERKVLVLYLDGQSYQEISEELNRHVKSIDNALQRVKRKL 205
Cdd:smart00421   1 LASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKL 46
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 153-206 7.90e-06

DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 441799 [Multi-domain]  Cd Length: 131  Bit Score: 43.73  E-value: 7.90e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 502819934 153 DDIELkMAELLSDLERKVLVLYLDGQSYQEISEELNRHVKSIDNALQRVKRKLE 206
Cdd:COG2197   61 DGLEA-LRRLLTPREREVLRLLAEGLSNKEIAERLGISERTVKTHVSNILRKLG 113
PRK08311 PRK08311
RNA polymerase sigma factor SigI;
14-156 1.11e-05

RNA polymerase sigma factor SigI;


Pssm-ID: 236233 [Multi-domain]  Cd Length: 237  Bit Score: 44.86  E-value: 1.11e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  14 EQQEDETVVDLVHKGDIDALEYLIHKYKNFVrAKARSYFL---IGADREDIVQEGMIGLYKAIRDFREDKLTSFKAFAEL 90
Cdd:PRK08311   1 RKKSLEDILEKIKNGDEELREELIEEYKPFI-AKVVSSVCgryIDWENDDELSIGLIAFNEAIDSYDEEKGKSFLSFAEL 79

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 502819934  91 CITRQIITAIKTATRQKHIPLNSyvsldkpiYDEESDRTLMDVISgtKVANPEELLINREKFDDIE 156
Cdd:PRK08311  80 VIKRRLIDYFRKESKHNLVLSNS--------DEEDEEENDIEIEL--SLEEYQEEEENEERREEIE 135
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
43-205 1.93e-05

DNA-binding transcriptional regulator, CsgD family [Transcription];


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 43.59  E-value: 1.93e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  43 FVRAKARSYFLIGADREDIVQEGMIGLYKAIRDFREDKLTSFKAFAELCITRQIITAIKTATRQKHIPLNSYVSLDKPIY 122
Cdd:COG2771    7 ALLLLALLLLLLALLALLLLLLLAALLLLLALLLLAALLLLAAAAAALAAALAAALLLGLLLLLLIALLLLLLLLLALLL 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934 123 DEESDRTLMDVISGTKVANPEELLINREKFDDIELKMAEL-LSDLERKVLVLYLDGQSYQEISEELNRHVKSIDNALQRV 201
Cdd:COG2771   87 LLALLALLAALLARLAALLLALALAALLLAALARLLARAPgLTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRI 166


                 ....
gi 502819934 202 KRKL 205
Cdd:COG2771  167 YRKL 170
PRK12524 PRK12524
RNA polymerase sigma factor; Provisional
 18-210 2.46e-05

RNA polymerase sigma factor; Provisional


Pssm-ID: 183573 [Multi-domain]  Cd Length: 196  Bit Score: 43.34  E-value: 2.46e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  18 DETVVDLVHKGDIDALEYLIHKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDFR--EDKLTS--FKAFAELCIT 93
Cdd:PRK12524  13 DEALLVLYANGDPAAARALTLRLAPRALAVATRVLGDRAEAEDVTQEAMLRLWRIAPDWRqgEARVSTwlYRVVCNLCTD 92

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  94 RqiitaiKTATRQKHIplnsyvsldkpiyDEESDRTLMDVISGTkvanpEELLINREKFDDIELKMAElLSDLERKVLVL 173
Cdd:PRK12524  93 R------LRRRRRASV-------------DLDDAPEPADAAPGA-----EEALIEGDRMRALDAALAA-LPERQRQAVVL 147

                        170       180       190
                 ....*....|....*....|....*....|....*...
gi 502819934 174 -YLDGQSYQEISEELNRHVKSIDNALQRVKRKLERYLE 210
Cdd:PRK12524 148 rHIEGLSNPEIAEVMEIGVEAVESLTARGKRALAALLA 185
PRK09641 PRK09641
RNA polymerase sigma factor SigW; Provisional
 22-210 8.27e-05

RNA polymerase sigma factor SigW; Provisional


Pssm-ID: 182012 [Multi-domain]  Cd Length: 187  Bit Score: 41.99  E-value: 8.27e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  22 VDLVHKGDIDALEYLIHKYKNFVRAKArsYFLIG--ADREDIVQEGMIGLYKAIRDFREDKLTS---FKAFAELCITRqi 96
Cdd:PRK09641   9 IKQVKKGDQNAFAELVDLYKDKIYQLC--YRMLGnrHEAEDAAQEAFIRAYVNIDSYDINRKFStwlYRIATNLTIDR-- 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  97 itaiktaTRQKhiplNSYVSLDKPIYDEEsDRTLMDVISgTKVANPEELLINREKFDDIELKMAELlSDLERKVLVL-YL 175
Cdd:PRK09641  85 -------LRKR----KPDYYLDAEVAGTE-GLTMYSQLA-ADDALPEEQVVSLELQETIQEAILQL-PEKYRTVIVLkYI 150

                        170       180       190
                 ....*....|....*....|....*....|....*
gi 502819934 176 DGQSYQEISEELNRHVKSIDNALQRVKRKLERYLE 210
Cdd:PRK09641 151 EDLSLKEISEILDLPVGTVKTRIHRGREALRKQLR 185
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 163-205 8.45e-05

C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many are active as homodimers. Many are two domain proteins in which the DNA binding property of the C-terminal DNA binding domain is modulated by modifications of the N-terminal domain. For example in the case of Lux R which participates in the regulation of gene expression in response to fluctuations in cell-population density (quorum-sensing), a signaling molecule, the pheromone Acyl HSL (N-acyl derivatives of homoserine lactone), binds to the N-terminal domain and leads to LuxR dimerization. For others phophorylation of the N-terminal domain leads to multimerization, for example Escherichia coli NarL and Sinorhizobium melilot FixJ. NarL controls gene expression of many respiratory-related operons when environmental nitrate or nitrite is present under anerobic conditions. FixJ is involved in the transcriptional activation of nitrogen fixation genes. The group also includes small proteins which lack an N-terminal signaling domain, such as Bacillus subtilis GerE. GerE is dimeric and acts in conjunction with sigmaK as an activator or a repressor modulating the expression of various genes in particular those encoding the spore-coat. These LuxR family regulators may share a similar organization of their target binding sites. For example the LuxR dimer binds the lux box, a 20bp inverted repeat, GerE dimers bind two 12bp consensus sequences in inverted orientation having the central four bases overlap, and the NarL dimer binds two 7bp inverted repeats separated by 2 bp.


Pssm-ID: 99777 [Multi-domain]  Cd Length: 57  Bit Score: 39.05  E-value: 8.45e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 502819934 163 LSDLERKVLVLYLDGQSYQEISEELNRHVKSIDNALQRVKRKL 205
Cdd:cd06170    1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKL 43
PRK06811 PRK06811
RNA polymerase factor sigma-70; Validated
 27-205 1.40e-04

RNA polymerase factor sigma-70; Validated


Pssm-ID: 180707 [Multi-domain]  Cd Length: 189  Bit Score: 41.08  E-value: 1.40e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  27 KGDIDALEYLIHKYKNFVRAKARSYFLIGADREDI---VQEGMIGLYKAIRDFREDKlTSFKAFAeLCITR-QIITAIKT 102
Cdd:PRK06811  14 KKNEKALEFIVDTYGNLVKKIVHKVLGTVNYSQLIeecVNDIFLSIWNNIDKFDEEK-GSFKKWI-AAISKyKAIDYKRK 91

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934 103 ATRQKHIplnsyVSLDKpIYDEESDRTlmdvisgtkvanpEELLINREKFDDIeLKMAELLSDLERKVLVL-YLDGQSYQ 181
Cdd:PRK06811  92 LTKNNEI-----DSIDE-FILISEESI-------------ENEIILKENKEEI-LKLINDLEKLDREIFIRrYLLGEKIE 151

                        170       180
                 ....*....|....*....|....
gi 502819934 182 EISEELNRHVKSIDNALQRVKRKL 205
Cdd:PRK06811 152 EIAKKLGLTRSAIDNRLSRGRKKL 175
Sig70_bacteroi1 TIGR02985
RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors ...
 31-205 2.04e-04

RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.


Pssm-ID: 274376 [Multi-domain]  Cd Length: 161  Bit Score: 40.24  E-value: 2.04e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934   31 DALEYLIHKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKaIRDFREDkLTSFKAFaelcitrqIITAIKTAT----RQ 106
Cdd:TIGR02985   1 EAFEQLYRRYYPKLCAFARRYVKDEEDAEDIVQDVFLKLWE-NRETLEI-SESIKAY--------LFTIVKNRClnylRH 70

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  107 KHIPLNSYVSLDKPIYDEESDrtlmdvisgtkvANPEELLINREKFDDIELKMAElLSDLERKVLVL-YLDGQSYQEISE 185
Cdd:TIGR02985  71 KQVEEKYQEELAEIEERELSE------------ADPEEELEAKELEEIIEEAIEK-LPEQCREIFILsRFEGLSNKEIAE 137

                         170       180
                  ....*....|....*....|
gi 502819934  186 ELNRHVKSIDNALQRVKRKL 205
Cdd:TIGR02985 138 ELGISVKTVEYHITKALKFL 157
PRK06288 PRK06288
RNA polymerase sigma factor WhiG; Reviewed
 14-187 2.67e-04

RNA polymerase sigma factor WhiG; Reviewed


Pssm-ID: 235770 [Multi-domain]  Cd Length: 268  Bit Score: 40.83  E-value: 2.67e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  14 EQQEDETVVDLVHKGDIDALEYLIHKYKNFVRAKArSYFLIG----ADREDIVQEGMIGLYKAIRDFREDKLTSFKAFAE 89
Cdd:PRK06288  14 QQDETELWREYKKTGDPKIREYLILKYSPLVKYVA-GRIAVGmpqnVEFDDLVSYGVFGLIDAIEKFDPEREIKFKTYAV 92

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934  90 LCI---------------------TRQIITAI--------KTATRQ-----------------KHIPLNSYVSLDKPIY- 122
Cdd:PRK06288  93 TRIrgaifdelrsidwiprsvrqkARQIERAIamlearlgRTPSDEeiadelgisleeynsllSKLSGTSVVSLNDLWFg 172

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 502819934 123 DEESDR-TLMDVISGTKVANPEElLINREkfdDIELKMAELLSDL---ERKVLVL-YLDGQSYQEISEEL 187
Cdd:PRK06288 173 GDEGDEvSLMDTLESPAALNPDE-IAERE---EIKRVIVEAIKTLperEKKVLILyYYEDLTLKEIGKVL 238
PRK11922 PRK11922
RNA polymerase sigma factor; Provisional
 16-80 3.05e-03

RNA polymerase sigma factor; Provisional


Pssm-ID: 237024 [Multi-domain]  Cd Length: 231  Bit Score: 37.64  E-value: 3.05e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 502819934  16 QEDETVVDLVHKGDIDALEYLIHKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDFREDK 80
Cdd:PRK11922  15 ASDRELVARVLAGDEAAFEALMRRHNRRLYRTARAILRNDAEAEDVVQEAYLRAFRALGTFRGDA 79
PRK06596 PRK06596
RNA polymerase factor sigma-32; Reviewed
 15-84 4.30e-03

RNA polymerase factor sigma-32; Reviewed


Pssm-ID: 235838 [Multi-domain]  Cd Length: 284  Bit Score: 37.08  E-value: 4.30e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 502819934  15 QQEDETVVDLVHKGDIDALEYLIHKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDFREDK---LTSF 84
Cdd:PRK06596  32 EEEYMLAKRLREHGDLEAAKQLVLSHLRFVVHIARGYRGYGLPQADLIQEGNIGLMKAVKRFDPEVgvrLVSF 104
PRK05572 PRK05572
RNA polymerase sporulation sigma factor, SigF/SigG family;
11-76 7.45e-03

RNA polymerase sporulation sigma factor, SigF/SigG family;


Pssm-ID: 180137 [Multi-domain]  Cd Length: 252  Bit Score: 36.49  E-value: 7.45e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 502819934  11 AHFEQQEDETVVDLVHKGDIDALEYLIHKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDF 76
Cdd:PRK05572  12 PQLKDEENKELIKKSQDGDQEARDTLVEKNLRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKAVDKF 77
 
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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