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Conserved domains on  [gi|636786937|ref|WP_024323129|]
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response regulator transcription factor [Rhizobium ruizarguesonis]

Protein Classification

helix-turn-helix transcriptional regulator( domain architecture ID 10677008)

helix-turn-helix (HTH) transcriptional regulator containing a LuxR family HTH DNA-binding domain; may act as a transcription activator/repressor, or have a dual role for different sites

Gene Ontology:  GO:0006355|GO:0003677|GO:0003700
PubMed:  15808743|19076237|10473770|8831795

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 188-243 9.05e-21

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


:

Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 82.57  E-value: 9.05e-21
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 636786937   188 ALTTREVQILDLICKGTQNKIIADKLHLSENTVKVHVRNIYKKMNVRNRTEAASRF 243
Cdd:smart00421   3 SLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
112-243 1.70e-14

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


:

Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 69.78  E-value: 1.70e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 636786937 112 RLVEARIIDGVLPLNLRLDVFMAAVDLLMKGGEHFPSALLNRLNNKNAQLEPSLYQTKSVDAARNNALKLRRDSISALTT 191
Cdd:COG2771   51 AAALAAALAAALLLGLLLLLLIALLLLLLLLLALLLLLALLALLAALLARLAALLLALALAALLLAALARLLARAPGLTP 130

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 636786937 192 REVQILDLICKGTQNKIIADKLHLSENTVKVHVRNIYKKMNVRNRTEAASRF 243
Cdd:COG2771  131 REREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSSRAELVALA 182
 
Name Accession Description Interval E-value
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 188-243 9.05e-21

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 82.57  E-value: 9.05e-21
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 636786937   188 ALTTREVQILDLICKGTQNKIIADKLHLSENTVKVHVRNIYKKMNVRNRTEAASRF 243
Cdd:smart00421   3 SLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 189-242 1.04e-20

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: 84.94  E-value: 1.04e-20
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 636786937 189 LTTREVQILDLICKGTQNKIIADKLHLSENTVKVHVRNIYKKMNVRNRTEAASR 242
Cdd:COG2197   70 LTPREREVLRLLAEGLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLL 123
GerE pfam00196
Bacterial regulatory proteins, luxR family;
187-240 1.41e-17

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 74.16  E-value: 1.41e-17
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 636786937  187 SALTTREVQILDLICKGTQNKIIADKLHLSENTVKVHVRNIYKKMNVRNRTEAA 240
Cdd:pfam00196   1 DSLSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELV 54
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 189-245 1.80e-17

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: 74.11  E-value: 1.80e-17
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 636786937 189 LTTREVQILDLICKGTQNKIIADKLHLSENTVKVHVRNIYKKMNVRNRTEAASRFFN 245
Cdd:cd06170    1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYAIR 57
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 185-240 6.61e-17

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 76.99  E-value: 6.61e-17
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 636786937 185 SISALTTREVQILDLICKGTQNKIIADKLHLSENTVKVHVRNIYKKMNVRNRTEAA 240
Cdd:PRK10651 152 DVNQLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAA 207
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
112-243 1.70e-14

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 69.78  E-value: 1.70e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 636786937 112 RLVEARIIDGVLPLNLRLDVFMAAVDLLMKGGEHFPSALLNRLNNKNAQLEPSLYQTKSVDAARNNALKLRRDSISALTT 191
Cdd:COG2771   51 AAALAAALAAALLLGLLLLLLIALLLLLLLLLALLLLLALLALLAALLARLAALLLALALAALLLAALARLLARAPGLTP 130

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 636786937 192 REVQILDLICKGTQNKIIADKLHLSENTVKVHVRNIYKKMNVRNRTEAASRF 243
Cdd:COG2771  131 REREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSSRAELVALA 182
PRK09935 PRK09935
fimbriae biosynthesis transcriptional regulator FimZ;
135-238 8.05e-08

fimbriae biosynthesis transcriptional regulator FimZ;


Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 51.42  E-value: 8.05e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 636786937 135 AVDLLMKGGEHFPSALLNRLNNknaqlepslyqTKSVDAARNNalklrrdsiSALTTREVQILDLICKGTQNKIIADKLH 214
Cdd:PRK09935 116 AVQMILSGYTFFPSETLNYIKS-----------NKCSTNSSTD---------TVLSNREVTILRYLVSGLSNKEIADQLL 175

                         90       100
                 ....*....|....*....|....
gi 636786937 215 LSENTVKVHVRNIYKKMNVRNRTE 238
Cdd:PRK09935 176 LSNKTVSAHKSNIYGKLGLHSIVE 199
Sig70_bacteroi1 TIGR02985
RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors ...
 191-231 8.86e-03

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: 36.00  E-value: 8.86e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 636786937  191 TREVQILDLIcKGTQNKIIADKLHLSENTVKVHVRNIYKKM 231
Cdd:TIGR02985 118 CREIFILSRF-EGLSNKEIAEELGISVKTVEYHITKALKFL 157
 
Name Accession Description Interval E-value
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 188-243 9.05e-21

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 82.57  E-value: 9.05e-21
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 636786937   188 ALTTREVQILDLICKGTQNKIIADKLHLSENTVKVHVRNIYKKMNVRNRTEAASRF 243
Cdd:smart00421   3 SLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 189-242 1.04e-20

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: 84.94  E-value: 1.04e-20
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 636786937 189 LTTREVQILDLICKGTQNKIIADKLHLSENTVKVHVRNIYKKMNVRNRTEAASR 242
Cdd:COG2197   70 LTPREREVLRLLAEGLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLL 123
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 182-244 3.96e-20

Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell division, chromosome partitioning, Transcription];


Pssm-ID: 444607 [Multi-domain]  Cd Length: 76  Bit Score: 81.54  E-value: 3.96e-20
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 636786937 182 RRDSISALTTREVQILDLICKGTQNKIIADKLHLSENTVKVHVRNIYKKMNVRNRTEAASRFF 244
Cdd:COG5905    6 STSHPSLLTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWAL 68
GerE pfam00196
Bacterial regulatory proteins, luxR family;
187-240 1.41e-17

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 74.16  E-value: 1.41e-17
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 636786937  187 SALTTREVQILDLICKGTQNKIIADKLHLSENTVKVHVRNIYKKMNVRNRTEAA 240
Cdd:pfam00196   1 DSLSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELV 54
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 189-245 1.80e-17

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: 74.11  E-value: 1.80e-17
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 636786937 189 LTTREVQILDLICKGTQNKIIADKLHLSENTVKVHVRNIYKKMNVRNRTEAASRFFN 245
Cdd:cd06170    1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYAIR 57
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 185-240 6.61e-17

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 76.99  E-value: 6.61e-17
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 636786937 185 SISALTTREVQILDLICKGTQNKIIADKLHLSENTVKVHVRNIYKKMNVRNRTEAA 240
Cdd:PRK10651 152 DVNQLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAA 207
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 183-240 1.38e-14

DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 443623 [Multi-domain]  Cd Length: 196  Bit Score: 70.13  E-value: 1.38e-14
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 636786937 183 RDSISALTTREVQILDLICKGTQNKIIADKLHLSENTVKVHVRNIYKKMNVRNRTEAA 240
Cdd:COG4566  132 RARLASLTPREREVLDLVVAGLSNKQIARELGISPRTVEVHRANVMEKLGARSLAELV 189
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
112-243 1.70e-14

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 69.78  E-value: 1.70e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 636786937 112 RLVEARIIDGVLPLNLRLDVFMAAVDLLMKGGEHFPSALLNRLNNKNAQLEPSLYQTKSVDAARNNALKLRRDSISALTT 191
Cdd:COG2771   51 AAALAAALAAALLLGLLLLLLIALLLLLLLLLALLLLLALLALLAALLARLAALLLALALAALLLAALARLLARAPGLTP 130

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 636786937 192 REVQILDLICKGTQNKIIADKLHLSENTVKVHVRNIYKKMNVRNRTEAASRF 243
Cdd:COG2771  131 REREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSSRAELVALA 182
MalT COG2909
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];
199-242 6.74e-13

ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];


Pssm-ID: 442153 [Multi-domain]  Cd Length: 184  Bit Score: 65.11  E-value: 6.74e-13
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 636786937 199 LICKGTQNKIIADKLHLSENTVKVHVRNIYKKMNVRNRTEAASR 242
Cdd:COG2909  133 LLAEGLSNKEIAERLFISVNTVKTHLRNIYRKLGVRSRTEAVAR 176
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
182-247 2.93e-12

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 64.10  E-value: 2.93e-12
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 636786937 182 RRDSISALTTREVQILDLICKGTQNKIIADKLHLSENTVKVHVRNIYKKMNVRNRTeAASRFFNEH 247
Cdd:PRK10403 147 EEDPFSVLTERELDVLHELAQGLSNKQIASVLNISEQTVKVHIRNLLRKLNVRSRV-AATILFLQQ 211
PRK15369 PRK15369
two component system response regulator;
181-238 1.81e-11

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 61.63  E-value: 1.81e-11
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 636786937 181 LRRDSISA-----------LTTREVQILDLICKGTQNKIIADKLHLSENTVKVHVRNIYKKMNVRNRTE 238
Cdd:PRK15369 131 LNREAILAllnaddtnpplLTPRERQILKLITEGYTNRDIAEQLSISIKTVETHRLNMMRKLDVHKVAE 199
PRK04841 PRK04841
HTH-type transcriptional regulator MalT;
186-239 2.23e-11

HTH-type transcriptional regulator MalT;


Pssm-ID: 235315 [Multi-domain]  Cd Length: 903  Bit Score: 63.42  E-value: 2.23e-11
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 636786937 186 ISALTTREVQILDLICKGTQNKIIADKLHLSENTVKVHVRNIYKKMNVRNRTEA 239
Cdd:PRK04841 836 TSPLTQREWQVLGLIYSGYSNEQIAGELDVAATTIKTHIRNLYQKLGIAHRQEA 889
PRK10100 PRK10100
transcriptional regulator CsgD;
187-247 4.27e-10

transcriptional regulator CsgD;


Pssm-ID: 182241 [Multi-domain]  Cd Length: 216  Bit Score: 57.96  E-value: 4.27e-10
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 636786937 187 SALTTREVQILDLICKGTQNKIIADKLHLSENTVKVHVRNIYKKMNVRNRTEAASrFFNEH 247
Cdd:PRK10100 154 ALLTHREKEILNKLRIGASNNEIARSLFISENTVKTHLYNLFKKIAVKNRTQAVS-WANDN 213
PRK10360 PRK10360
transcriptional regulator UhpA;
178-245 1.99e-08

transcriptional regulator UhpA;


Pssm-ID: 182408 [Multi-domain]  Cd Length: 196  Bit Score: 53.06  E-value: 1.99e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 636786937 178 ALKLRRDSISALTTREVQILDLICKGTQNKIIADKLHLSENTVKVHVRNIYKKMNVRNRTEAASRFFN 245
Cdd:PRK10360 127 AIKLASGRQDPLTKRERQVAEKLAQGMAVKEIAAELGLSPKTVHVHRANLMEKLGVSNDVELARRMFD 194
PRK09935 PRK09935
fimbriae biosynthesis transcriptional regulator FimZ;
135-238 8.05e-08

fimbriae biosynthesis transcriptional regulator FimZ;


Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 51.42  E-value: 8.05e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 636786937 135 AVDLLMKGGEHFPSALLNRLNNknaqlepslyqTKSVDAARNNalklrrdsiSALTTREVQILDLICKGTQNKIIADKLH 214
Cdd:PRK09935 116 AVQMILSGYTFFPSETLNYIKS-----------NKCSTNSSTD---------TVLSNREVTILRYLVSGLSNKEIADQLL 175

                         90       100
                 ....*....|....*....|....
gi 636786937 215 LSENTVKVHVRNIYKKMNVRNRTE 238
Cdd:PRK09935 176 LSNKTVSAHKSNIYGKLGLHSIVE 199
fixJ PRK09390
response regulator FixJ; Provisional
 80-238 6.71e-05

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 42.68  E-value: 6.71e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 636786937  80 LHEALQAARENHPETSIGLVVEAIDMLE----PYVSRLVEARIIDGVLPLNLRLDVFMA-------AVDLLMKGGEHfpS 148
Cdd:PRK09390  32 LFESAQAFLDALPGLRFGCVVTDVRMPGidgiELLRRLKARGSPLPVIVMTGHGDVPLAveamklgAVDFIEKPFED--E 109

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 636786937 149 ALLNRLNNKNAQLEPSlyqTKSVDAArnnALKLRRdsISALTTREVQILDLICKGTQNKIIADKLHLSENTVKVHVRNIY 228
Cdd:PRK09390 110 RLIGAIERALAQAPEA---AKSEAVA---ADIRAR--IASLSERERQVMDGLVAGLSNKVIARDLDISPRTVEVYRANVM 181

                        170
                 ....*....|
gi 636786937 229 KKMNVRNRTE 238
Cdd:PRK09390 182 TKMQAGSLSE 191
PRK10188 PRK10188
transcriptional regulator SdiA;
189-240 1.39e-04

transcriptional regulator SdiA;


Pssm-ID: 182292 [Multi-domain]  Cd Length: 240  Bit Score: 42.08  E-value: 1.39e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 636786937 189 LTTREVQILDLICKGTQNKIIADKLHLSENTVKVHVRNIYKKMNVRNRTEAA 240
Cdd:PRK10188 180 FSKREKEILKWTAEGKTSAEIAMILSISENTVNFHQKNMQKKFNAPNKTQIA 231
PRK09483 PRK09483
response regulator; Provisional
 187-238 6.92e-03

response regulator; Provisional


Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 37.01  E-value: 6.92e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 636786937 187 SALTTREVQILDLICKGTQNKIIADKLHLSENTVKVHVRNIYKKMNVRNRTE 238
Cdd:PRK09483 147 ASLSERELQIMLMITKGQKVNEISEQLNLSPKTVNSYRYRMFSKLNISGDVE 198
Sig70_bacteroi1 TIGR02985
RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors ...
 191-231 8.86e-03

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: 36.00  E-value: 8.86e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 636786937  191 TREVQILDLIcKGTQNKIIADKLHLSENTVKVHVRNIYKKM 231
Cdd:TIGR02985 118 CREIFILSRF-EGLSNKEIAEELGISVKTVEYHITKALKFL 157
 
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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