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Conserved domains on  [gi|752852822|ref|WP_041479839|]
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MULTISPECIES: helix-turn-helix domain-containing protein [Pseudomonas]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
cupin_HpaA-like_N cd06999
AraC/XylS family transcriptional regulators similar to HpaA, N-terminal cupin domain; Members ...
 9-106 1.25e-53

AraC/XylS family transcriptional regulators similar to HpaA, N-terminal cupin domain; Members of this family contain an N-terminal cupin domain and a C-terminal AraC/XylS family helix-turn-helix (HTH) DNA-binding domain, similar to Escherichia coli 4-hydroxyphenylacetate catabolism regulatory protein HpaA (also known as 4HPA). HpaA is encoded by the hpaA gene which is located upstream of hpaBC. It is activated by 4-HPA, 3-HPA and phenylacetate, and represents a member of the AraC/XylS family of regulators that recognizes aromatic effectors. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


:

Pssm-ID: 380403 [Multi-domain]  Cd Length: 98  Bit Score: 169.99  E-value: 1.25e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822   9 IPVFKLYGESLDWPTPDLLHCETISARSREHHWEIKPHRHADLCQLLFVFKGQAELEIEGQRTQLETPAIQVLPPLSVHG 88
Cdd:cd06999    1 IPTYALYGESAAAPTPDFLHCETIAARSRLHDWEIAPHRHADLFQVLYIESGGGEVRLDGRTHPLSAPALVVVPPGVVHG 80

                         90
                 ....*....|....*...
gi 752852822  89 FRFSEDVEGFIVTLATPL 106
Cdd:cd06999   81 FRFSPDTDGHVLTLADPL 98
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
205-287 2.79e-22

helix_turn_helix, arabinose operon control protein;


:

Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 88.38  E-value: 2.79e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822   205 VKVEDLAHRLGISVSHLNGTCRELAGQPALQIMHERQLLEAKRLLTYTSMTIYEMSELLGFSDPTNFTRLFRRRVGISPK 284
Cdd:smart00342   2 LTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPS 81


                   ...
gi 752852822   285 AFR 287
Cdd:smart00342  82 EYR 84
 
Name Accession Description Interval E-value
cupin_HpaA-like_N cd06999
AraC/XylS family transcriptional regulators similar to HpaA, N-terminal cupin domain; Members ...
 9-106 1.25e-53

AraC/XylS family transcriptional regulators similar to HpaA, N-terminal cupin domain; Members of this family contain an N-terminal cupin domain and a C-terminal AraC/XylS family helix-turn-helix (HTH) DNA-binding domain, similar to Escherichia coli 4-hydroxyphenylacetate catabolism regulatory protein HpaA (also known as 4HPA). HpaA is encoded by the hpaA gene which is located upstream of hpaBC. It is activated by 4-HPA, 3-HPA and phenylacetate, and represents a member of the AraC/XylS family of regulators that recognizes aromatic effectors. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380403 [Multi-domain]  Cd Length: 98  Bit Score: 169.99  E-value: 1.25e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822   9 IPVFKLYGESLDWPTPDLLHCETISARSREHHWEIKPHRHADLCQLLFVFKGQAELEIEGQRTQLETPAIQVLPPLSVHG 88
Cdd:cd06999    1 IPTYALYGESAAAPTPDFLHCETIAARSRLHDWEIAPHRHADLFQVLYIESGGGEVRLDGRTHPLSAPALVVVPPGVVHG 80

                         90
                 ....*....|....*...
gi 752852822  89 FRFSEDVEGFIVTLATPL 106
Cdd:cd06999   81 FRFSPDTDGHVLTLADPL 98
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
205-287 2.79e-22

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 88.38  E-value: 2.79e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822   205 VKVEDLAHRLGISVSHLNGTCRELAGQPALQIMHERQLLEAKRLLTYTSMTIYEMSELLGFSDPTNFTRLFRRRVGISPK 284
Cdd:smart00342   2 LTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPS 81


                   ...
gi 752852822   285 AFR 287
Cdd:smart00342  82 EYR 84
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
70-293 3.45e-20

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 87.53  E-value: 3.45e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822  70 RTQLETPAIQVLPPLSVHGFRFSEDVEGFIVTLATPLINHLQAQLGDSVHALARAENYPAGKDGDYLNSLFSALQAEYNG 149
Cdd:COG2207   34 LVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLLALLALLLLVGLLLLLLLLLLLLLLLLLLLL 113

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822 150 HQPAREMLMHSLVSVIMVWVSRQAIVRHKASQRPQRQREYLNGFIQLVEETYRQHVKVEDLAHRLGISVSHLNGTCRELA 229
Cdd:COG2207  114 LLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLTLEELARELGLSPRTLSRLFKEET 193

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 752852822 230 GQPALQIMHERQLLEAKRLLTYTSMTIYEMSELLGFSDPTNFTRLFRRRVGISPKAFRDRLKAE 293
Cdd:COG2207  194 GTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKRLRAR 257
HTH_18 pfam12833
Helix-turn-helix domain;
210-289 2.55e-19

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 80.33  E-value: 2.55e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822  210 LAHRLGISVSHLNGTCRELAGQPALQIMHERQLLEAKRLLTY-TSMTIYEMSELLGFSDPTNFTRLFRRRVGISPKAFRD 288
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEdTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 752852822  289 R 289
Cdd:pfam12833  81 R 81
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 157-296 9.94e-17

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: 78.66  E-value: 9.94e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822 157 LMHSLV-----SVIMVWVSRQAIV-RHKASQRPQR---------QREYLNGFIQLVEETYRQHVKVEDLAHRLGISVSHL 221
Cdd:COG4977  164 LALHLVerdhgAELANAVARRLVVdPRRPGGQAQFspllvplghRDPRLARAQAWMEANLEEPLSVDELARRAGMSPRTL 243

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 752852822 222 NGTCRELAGQPALQIMHERQLLEAKRLLTYTSMTIYEMSELLGFSDPTNFTRLFRRRVGISPKAFRDRLKAEQQS 296
Cdd:COG4977  244 ERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSASHFRRAFRRRFGVSPSAYRRRFRARAAA 318
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
136-289 6.17e-14

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 70.39  E-value: 6.17e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822 136 LNSLFSALQAEYNGHQPAREML-MHSLVSVIMVWVSRQAIVRHKAsqRPQRQREYLngfiQLVEETYRQHVKVEDLAHRL 214
Cdd:PRK10572 136 FSDLFGQIEQAGQSEGRYSELLaMNLLERLLLRCMEAIPESLHPP--MDPRVREAC----QYISDHLASEFDIESVAQHV 209

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 752852822 215 GISVSHLNGTCRELAGQPALQIMHERQLLEAKRLLTYTSMTIYEMSELLGFSDPTNFTRLFRRRVGISPKAFRDR 289
Cdd:PRK10572 210 CLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQLYFSRVFKKCTGASPSEFRAR 284
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 194-287 1.25e-10

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: 61.23  E-value: 1.25e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822  194 IQLVEETYRQHVKVEDLAHRLGISVSHLNGTCRELAGQPALQIMHERQLLEAKRLLtYTSMTIYEMSELLGFSDPTNFTR 273
Cdd:TIGR04094 291 IQYINLNLYDPLKVEEIAKQFFMSESKLRKLFKKEMGISIQEYISKRKIEEAKYLL-RSQIPVSEVSNELGFYDLSHFSR 369

                          90
                  ....*....|....
gi 752852822  274 LFRRRVGISPKAFR 287
Cdd:TIGR04094 370 TFKKHTGVSPKQYQ 383
viru_reg_Rsp NF033869
AraC family transcriptional regulator Rsp; Rsp (repressor of surface proteins), as described ...
 150-290 1.19e-06

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


Pssm-ID: 411433 [Multi-domain]  Cd Length: 701  Bit Score: 49.72  E-value: 1.19e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822 150 HQPAREMLMHS-LVSVIMVWVSRQAIVRHKASQRPQRQREY--LNGFIQLVEETYRQHVKVEDLAHRLGISVSHlngtCR 226
Cdd:NF033869 106 HHDSNNEEQDDqVISKIIQTLYKEAVVRHPHLYIPNIAVNNpvFINCLTFIHDHISSNLSLRDVAQHCNISESY----CS 181

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 752852822 227 ELAGQ----------PALQIMHerqlleAKRLLTYTSMTIYEMSELLGFSDPTNFTRLFRRRVGISPKAFRDRL 290
Cdd:NF033869 182 NLFVRylnmnfkdyfTSLKLCH------AIQLLLSTNHSINAISELSGFSSHTNFTNQFKNYLNFSPKQFRTLL 249
Cupin_2 pfam07883
Cupin domain; This family represents the conserved barrel domain of the 'cupin' superfamily ( ...
 42-90 2.41e-04

Cupin domain; This family represents the conserved barrel domain of the 'cupin' superfamily ('cupa' is the Latin term for a small barrel).


Pssm-ID: 462300 [Multi-domain]  Cd Length: 71  Bit Score: 38.78  E-value: 2.41e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 752852822   42 EIKPHRHADLCQLLFVFKGQAELEIEGQRTQLETPAIQVLPPLSVHGFR 90
Cdd:pfam07883  10 SSPPHRHPGEDEFFYVLEGEGELTVDGEEVVLKAGDSVYFPAGVPHRFR 58
 
Name Accession Description Interval E-value
cupin_HpaA-like_N cd06999
AraC/XylS family transcriptional regulators similar to HpaA, N-terminal cupin domain; Members ...
 9-106 1.25e-53

AraC/XylS family transcriptional regulators similar to HpaA, N-terminal cupin domain; Members of this family contain an N-terminal cupin domain and a C-terminal AraC/XylS family helix-turn-helix (HTH) DNA-binding domain, similar to Escherichia coli 4-hydroxyphenylacetate catabolism regulatory protein HpaA (also known as 4HPA). HpaA is encoded by the hpaA gene which is located upstream of hpaBC. It is activated by 4-HPA, 3-HPA and phenylacetate, and represents a member of the AraC/XylS family of regulators that recognizes aromatic effectors. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380403 [Multi-domain]  Cd Length: 98  Bit Score: 169.99  E-value: 1.25e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822   9 IPVFKLYGESLDWPTPDLLHCETISARSREHHWEIKPHRHADLCQLLFVFKGQAELEIEGQRTQLETPAIQVLPPLSVHG 88
Cdd:cd06999    1 IPTYALYGESAAAPTPDFLHCETIAARSRLHDWEIAPHRHADLFQVLYIESGGGEVRLDGRTHPLSAPALVVVPPGVVHG 80

                         90
                 ....*....|....*...
gi 752852822  89 FRFSEDVEGFIVTLATPL 106
Cdd:cd06999   81 FRFSPDTDGHVLTLADPL 98
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
205-287 2.79e-22

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 88.38  E-value: 2.79e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822   205 VKVEDLAHRLGISVSHLNGTCRELAGQPALQIMHERQLLEAKRLLTYTSMTIYEMSELLGFSDPTNFTRLFRRRVGISPK 284
Cdd:smart00342   2 LTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPS 81


                   ...
gi 752852822   285 AFR 287
Cdd:smart00342  82 EYR 84
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
70-293 3.45e-20

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 87.53  E-value: 3.45e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822  70 RTQLETPAIQVLPPLSVHGFRFSEDVEGFIVTLATPLINHLQAQLGDSVHALARAENYPAGKDGDYLNSLFSALQAEYNG 149
Cdd:COG2207   34 LVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLLALLALLLLVGLLLLLLLLLLLLLLLLLLLL 113

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822 150 HQPAREMLMHSLVSVIMVWVSRQAIVRHKASQRPQRQREYLNGFIQLVEETYRQHVKVEDLAHRLGISVSHLNGTCRELA 229
Cdd:COG2207  114 LLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLTLEELARELGLSPRTLSRLFKEET 193

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 752852822 230 GQPALQIMHERQLLEAKRLLTYTSMTIYEMSELLGFSDPTNFTRLFRRRVGISPKAFRDRLKAE 293
Cdd:COG2207  194 GTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKRLRAR 257
HTH_18 pfam12833
Helix-turn-helix domain;
210-289 2.55e-19

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 80.33  E-value: 2.55e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822  210 LAHRLGISVSHLNGTCRELAGQPALQIMHERQLLEAKRLLTY-TSMTIYEMSELLGFSDPTNFTRLFRRRVGISPKAFRD 288
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEdTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 752852822  289 R 289
Cdd:pfam12833  81 R 81
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 157-296 9.94e-17

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: 78.66  E-value: 9.94e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822 157 LMHSLV-----SVIMVWVSRQAIV-RHKASQRPQR---------QREYLNGFIQLVEETYRQHVKVEDLAHRLGISVSHL 221
Cdd:COG4977  164 LALHLVerdhgAELANAVARRLVVdPRRPGGQAQFspllvplghRDPRLARAQAWMEANLEEPLSVDELARRAGMSPRTL 243

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 752852822 222 NGTCRELAGQPALQIMHERQLLEAKRLLTYTSMTIYEMSELLGFSDPTNFTRLFRRRVGISPKAFRDRLKAEQQS 296
Cdd:COG4977  244 ERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSASHFRRAFRRRFGVSPSAYRRRFRARAAA 318
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
136-289 6.17e-14

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 70.39  E-value: 6.17e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822 136 LNSLFSALQAEYNGHQPAREML-MHSLVSVIMVWVSRQAIVRHKAsqRPQRQREYLngfiQLVEETYRQHVKVEDLAHRL 214
Cdd:PRK10572 136 FSDLFGQIEQAGQSEGRYSELLaMNLLERLLLRCMEAIPESLHPP--MDPRVREAC----QYISDHLASEFDIESVAQHV 209

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 752852822 215 GISVSHLNGTCRELAGQPALQIMHERQLLEAKRLLTYTSMTIYEMSELLGFSDPTNFTRLFRRRVGISPKAFRDR 289
Cdd:PRK10572 210 CLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQLYFSRVFKKCTGASPSEFRAR 284
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 194-287 1.25e-10

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: 61.23  E-value: 1.25e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822  194 IQLVEETYRQHVKVEDLAHRLGISVSHLNGTCRELAGQPALQIMHERQLLEAKRLLtYTSMTIYEMSELLGFSDPTNFTR 273
Cdd:TIGR04094 291 IQYINLNLYDPLKVEEIAKQFFMSESKLRKLFKKEMGISIQEYISKRKIEEAKYLL-RSQIPVSEVSNELGFYDLSHFSR 369

                          90
                  ....*....|....
gi 752852822  274 LFRRRVGISPKAFR 287
Cdd:TIGR04094 370 TFKKHTGVSPKQYQ 383
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 194-294 2.01e-08

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: 54.67  E-value: 2.01e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822 194 IQLVEETYRQHVKVEDLAHRLGISVSHLNGTCRELAGQPALQIMHERQLLEAKRLLTyTSMTIYEMSELLGFSDPTNFTR 273
Cdd:COG2169   90 CRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLLQ-TGLSVTDAAYAAGFGSLSRFYE 168

                         90       100
                 ....*....|....*....|.
gi 752852822 274 LFRRRVGISPKAFRDRLKAEQ 294
Cdd:COG2169  169 AFKKLLGMTPSAYRRGGAGAA 189
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
142-295 4.78e-08

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 53.14  E-value: 4.78e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822 142 ALQAEYNGHQPA-REML-MHSLVSvimvwvsrqaIVRHKASQRPQRQREYLNGFIQLVEETYRQHVKVEDLAHRLGISVS 219
Cdd:PRK13503 133 QQEESNDLEAIAsREILfMQLLVL----------LRKSSLQENGENSDARLNQLLAWLEDHFAEEVNWEALADQFSLSLR 202

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 752852822 220 HLNGTCRELAGQPALQIMHERQLLEAKRLLTYTSMTIYEMSELLGFSDPTNFTRLFRRRVGISPKAFRDRLKAEQQ 295
Cdd:PRK13503 203 TLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDSNHFSTLFRREFSWSPRDIRQGRDGFLQ 278
QdoI COG1917
Cupin domain protein related to quercetin dioxygenase [General function prediction only];
38-106 4.22e-07

Cupin domain protein related to quercetin dioxygenase [General function prediction only];


Pssm-ID: 441521 [Multi-domain]  Cd Length: 99  Bit Score: 47.54  E-value: 4.22e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 752852822  38 EHHWEIKPHRHaDLCQLLFVFKGQAELEIEGQRTQLETPAIQVLPPLSVHGFRFSEDVEGFIVTLATPL 106
Cdd:COG1917   31 EPGARTPWHSH-PGEELIYVLEGEGEVEVGGEEYELKPGDVVFIPPGVPHAFRNLGDEPAVLLVVFSPG 98
ftrA PRK09393
transcriptional activator FtrA; Provisional
 183-292 8.04e-07

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 49.58  E-value: 8.04e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822 183 PQRQREYLNGFIQLVEETYRQHVKVEDLAHRLGISVSHLNGTCRELAGQ-PALQIMHERqLLEAKRLLTYTSMTIYEMSE 261
Cdd:PRK09393 213 ASRESDRLGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMtPAEWLLRER-LARARDLLESSALSIDQIAE 291

                         90       100       110
                 ....*....|....*....|....*....|.
gi 752852822 262 LLGFSDPTNFTRLFRRRVGISPKAFRDRLKA 292
Cdd:PRK09393 292 RAGFGSEESLRHHFRRRAATSPAAYRKRFGR 322
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
186-290 9.83e-07

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 46.46  E-value: 9.83e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822 186 QREYLNGFIQLVEETYRQHVKVEDLAHRLGISVSHLNGTCRELAGQPALQIMHERQLLEAKRLLTYTSMTIYEMSELLGF 265
Cdd:PRK10219   3 HQKIIQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGY 82

                         90       100
                 ....*....|....*....|....*
gi 752852822 266 SDPTNFTRLFRRRVGISPKAFRDRL 290
Cdd:PRK10219  83 VSQQTFSRVFRRQFDRTPSDYRHRL 107
viru_reg_Rsp NF033869
AraC family transcriptional regulator Rsp; Rsp (repressor of surface proteins), as described ...
 150-290 1.19e-06

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


Pssm-ID: 411433 [Multi-domain]  Cd Length: 701  Bit Score: 49.72  E-value: 1.19e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822 150 HQPAREMLMHS-LVSVIMVWVSRQAIVRHKASQRPQRQREY--LNGFIQLVEETYRQHVKVEDLAHRLGISVSHlngtCR 226
Cdd:NF033869 106 HHDSNNEEQDDqVISKIIQTLYKEAVVRHPHLYIPNIAVNNpvFINCLTFIHDHISSNLSLRDVAQHCNISESY----CS 181

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 752852822 227 ELAGQ----------PALQIMHerqlleAKRLLTYTSMTIYEMSELLGFSDPTNFTRLFRRRVGISPKAFRDRL 290
Cdd:NF033869 182 NLFVRylnmnfkdyfTSLKLCH------AIQLLLSTNHSINAISELSGFSSHTNFTNQFKNYLNFSPKQFRTLL 249
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 252-287 4.29e-05

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: 40.21  E-value: 4.29e-05
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 752852822  252 TSMTIYEMSELLGFSdPTNFTRLFRRRVGISPKAFR 287
Cdd:pfam00165   7 TNLTIADIADELGFS-RSYFSRLFKKYTGVTPSQYR 41
Cupin_2 pfam07883
Cupin domain; This family represents the conserved barrel domain of the 'cupin' superfamily ( ...
 42-90 2.41e-04

Cupin domain; This family represents the conserved barrel domain of the 'cupin' superfamily ('cupa' is the Latin term for a small barrel).


Pssm-ID: 462300 [Multi-domain]  Cd Length: 71  Bit Score: 38.78  E-value: 2.41e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 752852822   42 EIKPHRHADLCQLLFVFKGQAELEIEGQRTQLETPAIQVLPPLSVHGFR 90
Cdd:pfam07883  10 SSPPHRHPGEDEFFYVLEGEGELTVDGEEVVLKAGDSVYFPAGVPHRFR 58
cupin_RmlC-like cd02208
RmlC-like cupin superfamily; This superfamily contains proteins similar to the RmlC (dTDP ...
 38-90 5.88e-04

RmlC-like cupin superfamily; This superfamily contains proteins similar to the RmlC (dTDP (deoxythymidine diphosphates)-4-dehydrorhamnose 3,5-epimerase)-like cupins. RmlC is a dTDP-sugar isomerase involved in the synthesis of L-rhamnose, a saccharide required for the virulence of some pathogenic bacteria. Cupins are a functionally diverse superfamily originally discovered based on the highly conserved motif found in germin and germin-like proteins. This conserved motif forms a beta-barrel fold found in all of the cupins, giving rise to the name cupin ('cupa' is the Latin term for small barrel). The active site of members of this superfamily is generally located at the center of a conserved barrel and usually includes a metal ion. The different functional classes in this superfamily include single domain bacterial isomerases and epimerases involved in the modification of cell wall carbohydrates, two domain bicupins such as the desiccation-tolerant seed storage globulins, and multidomain nuclear transcription factors involved in legume root nodulation.


Pssm-ID: 380338 [Multi-domain]  Cd Length: 73  Bit Score: 37.85  E-value: 5.88e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 752852822  38 EHHWEIKPHRHADLCQLLFVFKGQAELEIEGQRT-QLETPAIQVLPPLSVHGFR 90
Cdd:cd02208    7 PPGTSSPPHWHPEQDEIFYVLSGEGELTLDDGETvELKAGDIVLIPPGVPHSFV 60
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 176-290 2.01e-03

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 39.24  E-value: 2.01e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822 176 RHKASQRPQRQREYLngfIQLVEETYRQ-HVKVEDLAHRLGISVSHLNGTCRELAGQPALQIMHERQLLEAKRL---LTY 251
Cdd:PRK09685 188 RESVQPRRERQFQKV---VALIDQSIQEeILRPEWIAGELGISVRSLYRLFAEQGLVVAQYIRNRRLDRCADDLrpaADD 264

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 752852822 252 TSMTiyEMSELLGFSDPTNFTRLFRRRVGISPKAFRDRL 290
Cdd:PRK09685 265 EKIT--SIAYKWGFSDSSHFSTAFKQRFGVSPGEYRRKF 301
cupin_YobQ-like_N cd07003
Bacillus subtilis YobQ and related proteins, N-terminal cupin domain; This family includes ...
 35-102 2.18e-03

Bacillus subtilis YobQ and related proteins, N-terminal cupin domain; This family includes bacterial proteins homologous to Bacillus subtilis YobQ and Photobacterium leiognathi LumQ, both uncharacterized proteins thought to be DNA-binding proteins that may function as AraC/XylS family transcriptional regulators. YobQ has an N-terminal cupin beta barrel domain (represented by this alignment model) and a C-terminal AraC/XylS family helix-turn-helix (HTH) DNA-binding domain. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380407 [Multi-domain]  Cd Length: 66  Bit Score: 35.83  E-value: 2.18e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 752852822  35 RSREHhweIKPHRHADLCQLLFVFKGQAELEIEGQRTQLETPAIQVLPPLSVHGFRFSEDVEGFIVTL 102
Cdd:cd07003    1 RTYSH---DQSSHSHEHAQLVLPLSGSLELEVEGRGSRVKPDIGLYIPPNAEHRFAGSSDNRCLVLDL 65
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
209-290 2.92e-03

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 38.73  E-value: 2.92e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822 209 DLAHRLGISVSHLNGTCRELAGQPALQIMHERQLLEAKRLLTYTSMTIYEMSELLGFSDPTNFTRLFRRRVGISPKAFRD 288
Cdd:PRK13501 197 DFCHKNQLVERSLKQLFRQQTGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFSAVFTREAGMTPRDYRQ 276


                 ..
gi 752852822 289 RL 290
Cdd:PRK13501 277 RF 278
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
139-287 3.60e-03

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 38.50  E-value: 3.60e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822 139 LFSALQAEYNGHQPAREMLMHSLVSVIMVWVSRQaivRHKASQRPQRQRE-YLNGFIQLVEETYRQHVKVEDLAHRLGIS 217
Cdd:PRK13502 129 VINQLEHESNGRDPLANEMAELLFGQLVMTLKRH---RYATDDLPATSREtLLDKLITALANSLECPFALDAFCQQEQCS 205

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822 218 VSHLNGTCRELAGQPALQIMHERQLLEAKRLLTYTSMTIYEMSELLGFSDPTNFTRLFRRRVGISPKAFR 287
Cdd:PRK13502 206 ERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQCGFEDSNYFSVVFTRETGMTPSQWR 275
PRK10371 PRK10371
transcriptional regulator MelR;
177-287 4.57e-03

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 37.88  E-value: 4.57e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 752852822 177 HKASQRPQRQReYLNGFIQLVEETYRQHVKVEDLAHRLGISVSHLNGTCRELAGQPALQIMHERQLLEAKRLLTYTSMTI 256
Cdd:PRK10371 181 HKNSVSRHAQF-YVSQMLGFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLSDTDKSI 259

                         90       100       110
                 ....*....|....*....|....*....|.
gi 752852822 257 YEMSELLGFSDPTNFTRLFRRRVGISPKAFR 287
Cdd:PRK10371 260 LDIALTAGFRSSSRFYSTFGKYVGMSPQQYR 290
ManC COG0662
Mannose-6-phosphate isomerase, cupin superfamily [Carbohydrate transport and metabolism];
41-105 6.88e-03

Mannose-6-phosphate isomerase, cupin superfamily [Carbohydrate transport and metabolism];


Pssm-ID: 440426 [Multi-domain]  Cd Length: 114  Bit Score: 35.89  E-value: 6.88e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 752852822  41 WEIKPHRHADLCQLLFVFKGQAELEIEGQRTQLETPAIQVLPPLSVHGFRFSEDVEGFIVTLATP 105
Cdd:COG0662   38 AELSLHVHPHRDEFFYVLEGTGEVTIGDEEVELKAGDSVYIPAGVPHRLRNPGDEPLELLEVQAP 102
 
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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