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Conserved domains on  [gi|983589142|ref|WP_060738888|]
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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 9.34e-54

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: 9.34e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 983589142   9 IPVFKLYGESQEWPTPDLLHCETISKRSREHHWEIKPHRHADLCQLLFVFKGQAELEIEGRRTQLTEPAVQILPPLSVHG 88
Cdd:cd06999    1 IPTYALYGESAAAPTPDFLHCETIAARSRLHDWEIAPHRHADLFQVLYIESGGGEVRLDGRTHPLSAPALVVVPPGVVHG 80

                         90
                 ....*....|....*...
gi 983589142  89 FRFSEDVEGYVVTLAAPL 106
Cdd:cd06999   81 FRFSPDTDGHVLTLADPL 98
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
205-287 1.12e-23

helix_turn_helix, arabinose operon control protein;


:

Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 91.85  E-value: 1.12e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 983589142   205 VKVEDLAHRLGISVSHLNGTCRELAGQPALQIMHERQLLEAKRLLTYTGMTIYEISELLGFSDPTNFTRLFRRRVGISPK 284
Cdd:smart00342   2 LTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPS 81


                   ...
gi 983589142   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 9.34e-54

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: 9.34e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 983589142   9 IPVFKLYGESQEWPTPDLLHCETISKRSREHHWEIKPHRHADLCQLLFVFKGQAELEIEGRRTQLTEPAVQILPPLSVHG 88
Cdd:cd06999    1 IPTYALYGESAAAPTPDFLHCETIAARSRLHDWEIAPHRHADLFQVLYIESGGGEVRLDGRTHPLSAPALVVVPPGVVHG 80

                         90
                 ....*....|....*...
gi 983589142  89 FRFSEDVEGYVVTLAAPL 106
Cdd:cd06999   81 FRFSPDTDGHVLTLADPL 98
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
205-287 1.12e-23

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 91.85  E-value: 1.12e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 983589142   205 VKVEDLAHRLGISVSHLNGTCRELAGQPALQIMHERQLLEAKRLLTYTGMTIYEISELLGFSDPTNFTRLFRRRVGISPK 284
Cdd:smart00342   2 LTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPS 81


                   ...
gi 983589142   285 AFR 287
Cdd:smart00342  82 EYR 84
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
69-291 7.14e-22

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 92.15  E-value: 7.14e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 983589142  69 RRTQLTEPAVQILPPLSVHGFRFSEDVEGYVVTLAAPLVTHLQTQLGHSVNVLAQAESYPALENAEYLNSLFSALQNEYM 148
Cdd:COG2207   33 ALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLLALLALLLLVGLLLLLLLLLLLLLLLLLLL 112

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 983589142 149 GHQPAREMLMHALVSVIMVWVSRQVMQRHTQAQRPQRAREYLNGFIQLVEETYREHVKVEDLAHRLGISVSHLNGTCREL 228
Cdd:COG2207  113 LLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLTLEELARELGLSPRTLSRLFKEE 192

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 983589142 229 AGQPALQIMHERQLLEAKRLLTYTGMTIYEISELLGFSDPTNFTRLFRRRVGISPKAFRDRLK 291
Cdd:COG2207  193 TGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKRLR 255
HTH_18 pfam12833
Helix-turn-helix domain;
210-289 2.00e-21

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 86.10  E-value: 2.00e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 983589142  210 LAHRLGISVSHLNGTCRELAGQPALQIMHERQLLEAKRLLTY-TGMTIYEISELLGFSDPTNFTRLFRRRVGISPKAFRD 288
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEdTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 983589142  289 R 289
Cdd:pfam12833  81 R 81
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 157-289 4.04e-19

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: 85.59  E-value: 4.04e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 983589142 157 LMHALV-----SVIMVWVSRQ-VMQRHTQAQRPQRA---------REYLNGFIQLVEETYREHVKVEDLAHRLGISVSHL 221
Cdd:COG4977  164 LALHLVerdhgAELANAVARRlVVDPRRPGGQAQFSpllvplghrDPRLARAQAWMEANLEEPLSVDELARRAGMSPRTL 243

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 983589142 222 NGTCRELAGQPALQIMHERQLLEAKRLLTYTGMTIYEISELLGFSDPTNFTRLFRRRVGISPKAFRDR 289
Cdd:COG4977  244 ERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSASHFRRAFRRRFGVSPSAYRRR 311
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
136-289 1.20e-14

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 72.70  E-value: 1.20e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 983589142 136 LNSLFSALQNEYMGHQPAREML-MHALVSVIMVWVSRQ-VMQRHTQAQRPQRAREYLNGFIQlveetyrEHVKVEDLAHR 213
Cdd:PRK10572 136 FSDLFGQIEQAGQSEGRYSELLaMNLLERLLLRCMEAIpESLHPPMDPRVREACQYISDHLA-------SEFDIESVAQH 208

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 983589142 214 LGISVSHLNGTCRELAGQPALQIMHERQLLEAKRLLTYTGMTIYEISELLGFSDPTNFTRLFRRRVGISPKAFRDR 289
Cdd:PRK10572 209 VCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQLYFSRVFKKCTGASPSEFRAR 284
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 194-287 3.04e-11

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: 63.16  E-value: 3.04e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 983589142  194 IQLVEETYREHVKVEDLAHRLGISVSHLNGTCRELAGQPALQIMHERQLLEAKRLLtYTGMTIYEISELLGFSDPTNFTR 273
Cdd:TIGR04094 291 IQYINLNLYDPLKVEEIAKQFFMSESKLRKLFKKEMGISIQEYISKRKIEEAKYLL-RSQIPVSEVSNELGFYDLSHFSR 369

                          90
                  ....*....|....
gi 983589142  274 LFRRRVGISPKAFR 287
Cdd:TIGR04094 370 TFKKHTGVSPKQYQ 383
viru_reg_Rsp NF033869
AraC family transcriptional regulator Rsp; Rsp (repressor of surface proteins), as described ...
 241-290 3.94e-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: 48.18  E-value: 3.94e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 983589142 241 QLLEAKRLLTYTGMTIYEISELLGFSDPTNFTRLFRRRVGISPKAFRDRL 290
Cdd:NF033869 200 KLCHAIQLLLSTNHSINAISELSGFSSHTNFTNQFKNYLNFSPKQFRTLL 249
Cupin_2 pfam07883
Cupin domain; This family represents the conserved barrel domain of the 'cupin' superfamily ( ...
 42-100 2.88e-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: 38.39  E-value: 2.88e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 983589142   42 EIKPHRHADLCQLLFVFKGQAELEIEGRRTQLTEPAVQILPPLSVHGFR--FSEDVEGYVV 100
Cdd:pfam07883  10 SSPPHRHPGEDEFFYVLEGEGELTVDGEEVVLKAGDSVYFPAGVPHRFRntGDEPARLLDV 70
 
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 9.34e-54

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: 9.34e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 983589142   9 IPVFKLYGESQEWPTPDLLHCETISKRSREHHWEIKPHRHADLCQLLFVFKGQAELEIEGRRTQLTEPAVQILPPLSVHG 88
Cdd:cd06999    1 IPTYALYGESAAAPTPDFLHCETIAARSRLHDWEIAPHRHADLFQVLYIESGGGEVRLDGRTHPLSAPALVVVPPGVVHG 80

                         90
                 ....*....|....*...
gi 983589142  89 FRFSEDVEGYVVTLAAPL 106
Cdd:cd06999   81 FRFSPDTDGHVLTLADPL 98
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
205-287 1.12e-23

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 91.85  E-value: 1.12e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 983589142   205 VKVEDLAHRLGISVSHLNGTCRELAGQPALQIMHERQLLEAKRLLTYTGMTIYEISELLGFSDPTNFTRLFRRRVGISPK 284
Cdd:smart00342   2 LTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPS 81


                   ...
gi 983589142   285 AFR 287
Cdd:smart00342  82 EYR 84
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
69-291 7.14e-22

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 92.15  E-value: 7.14e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 983589142  69 RRTQLTEPAVQILPPLSVHGFRFSEDVEGYVVTLAAPLVTHLQTQLGHSVNVLAQAESYPALENAEYLNSLFSALQNEYM 148
Cdd:COG2207   33 ALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLLALLALLLLVGLLLLLLLLLLLLLLLLLLL 112

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 983589142 149 GHQPAREMLMHALVSVIMVWVSRQVMQRHTQAQRPQRAREYLNGFIQLVEETYREHVKVEDLAHRLGISVSHLNGTCREL 228
Cdd:COG2207  113 LLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLTLEELARELGLSPRTLSRLFKEE 192

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 983589142 229 AGQPALQIMHERQLLEAKRLLTYTGMTIYEISELLGFSDPTNFTRLFRRRVGISPKAFRDRLK 291
Cdd:COG2207  193 TGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKRLR 255
HTH_18 pfam12833
Helix-turn-helix domain;
210-289 2.00e-21

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 86.10  E-value: 2.00e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 983589142  210 LAHRLGISVSHLNGTCRELAGQPALQIMHERQLLEAKRLLTY-TGMTIYEISELLGFSDPTNFTRLFRRRVGISPKAFRD 288
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEdTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 983589142  289 R 289
Cdd:pfam12833  81 R 81
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 157-289 4.04e-19

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: 85.59  E-value: 4.04e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 983589142 157 LMHALV-----SVIMVWVSRQ-VMQRHTQAQRPQRA---------REYLNGFIQLVEETYREHVKVEDLAHRLGISVSHL 221
Cdd:COG4977  164 LALHLVerdhgAELANAVARRlVVDPRRPGGQAQFSpllvplghrDPRLARAQAWMEANLEEPLSVDELARRAGMSPRTL 243

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 983589142 222 NGTCRELAGQPALQIMHERQLLEAKRLLTYTGMTIYEISELLGFSDPTNFTRLFRRRVGISPKAFRDR 289
Cdd:COG4977  244 ERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSASHFRRAFRRRFGVSPSAYRRR 311
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
136-289 1.20e-14

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 72.70  E-value: 1.20e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 983589142 136 LNSLFSALQNEYMGHQPAREML-MHALVSVIMVWVSRQ-VMQRHTQAQRPQRAREYLNGFIQlveetyrEHVKVEDLAHR 213
Cdd:PRK10572 136 FSDLFGQIEQAGQSEGRYSELLaMNLLERLLLRCMEAIpESLHPPMDPRVREACQYISDHLA-------SEFDIESVAQH 208

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 983589142 214 LGISVSHLNGTCRELAGQPALQIMHERQLLEAKRLLTYTGMTIYEISELLGFSDPTNFTRLFRRRVGISPKAFRDR 289
Cdd:PRK10572 209 VCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQLYFSRVFKKCTGASPSEFRAR 284
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 194-287 3.04e-11

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: 63.16  E-value: 3.04e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 983589142  194 IQLVEETYREHVKVEDLAHRLGISVSHLNGTCRELAGQPALQIMHERQLLEAKRLLtYTGMTIYEISELLGFSDPTNFTR 273
Cdd:TIGR04094 291 IQYINLNLYDPLKVEEIAKQFFMSESKLRKLFKKEMGISIQEYISKRKIEEAKYLL-RSQIPVSEVSNELGFYDLSHFSR 369

                          90
                  ....*....|....
gi 983589142  274 LFRRRVGISPKAFR 287
Cdd:TIGR04094 370 TFKKHTGVSPKQYQ 383
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 194-289 2.83e-10

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: 60.45  E-value: 2.83e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 983589142 194 IQLVEETYREHVKVEDLAHRLGISVSHLNGTCRELAGQPALQIMHERQLLEAKRLLTyTGMTIYEISELLGFSDPTNFTR 273
Cdd:COG2169   90 CRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLLQ-TGLSVTDAAYAAGFGSLSRFYE 168

                         90
                 ....*....|....*.
gi 983589142 274 LFRRRVGISPKAFRDR 289
Cdd:COG2169  169 AFKKLLGMTPSAYRRG 184
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
151-287 8.19e-10

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 58.53  E-value: 8.19e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 983589142 151 QPAREML-MHALVSvimvwvsrqvMQRHTQAQRPQRAREYLNGFIQLVEETYREHVKVEDLAHRLGISVSHLNGTCRELA 229
Cdd:PRK13503 143 IASREILfMQLLVL----------LRKSSLQENGENSDARLNQLLAWLEDHFAEEVNWEALADQFSLSLRTLHRQLKQQT 212

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 983589142 230 GQPALQIMHERQLLEAKRLLTYTGMTIYEISELLGFSDPTNFTRLFRRRVGISPKAFR 287
Cdd:PRK13503 213 GLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDSNHFSTLFRREFSWSPRDIR 270
ftrA PRK09393
transcriptional activator FtrA; Provisional
 171-289 1.26e-08

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 54.97  E-value: 1.26e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 983589142 171 RQVMQRHT---QAQ---RP--QRAREYLNGFIQLVEETYREHVKVEDLAHRLGISVSHLNGTCRELAGQ-PALQIMHERq 241
Cdd:PRK09393 193 RLVVPPHRdggQAQfvpRPvaSRESDRLGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMtPAEWLLRER- 271

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*...
gi 983589142 242 LLEAKRLLTYTGMTIYEISELLGFSDPTNFTRLFRRRVGISPKAFRDR 289
Cdd:PRK09393 272 LARARDLLESSALSIDQIAERAGFGSEESLRHHFRRRAATSPAAYRKR 319
QdoI COG1917
Cupin domain protein related to quercetin dioxygenase [General function prediction only];
38-106 2.11e-06

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


Pssm-ID: 441521 [Multi-domain]  Cd Length: 99  Bit Score: 45.22  E-value: 2.11e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 983589142  38 EHHWEIKPHRHaDLCQLLFVFKGQAELEIEGRRTQLTEPAVQILPPLSVHGFRFSEDVEGYVVTLAAPL 106
Cdd:COG1917   31 EPGARTPWHSH-PGEELIYVLEGEGEVEVGGEEYELKPGDVVFIPPGVPHAFRNLGDEPAVLLVVFSPG 98
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
188-290 3.19e-06

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 45.30  E-value: 3.19e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 983589142 188 EYLNGFIQLVEETYREHVKVEDLAHRLGISVSHLNGTCRELAGQPALQIMHERQLLEAKRLLTYTGMTIYEISELLGFSD 267
Cdd:PRK10219   5 KIIQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVS 84

                         90       100
                 ....*....|....*....|...
gi 983589142 268 PTNFTRLFRRRVGISPKAFRDRL 290
Cdd:PRK10219  85 QQTFSRVFRRQFDRTPSDYRHRL 107
viru_reg_Rsp NF033869
AraC family transcriptional regulator Rsp; Rsp (repressor of surface proteins), as described ...
 241-290 3.94e-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: 48.18  E-value: 3.94e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 983589142 241 QLLEAKRLLTYTGMTIYEISELLGFSDPTNFTRLFRRRVGISPKAFRDRL 290
Cdd:NF033869 200 KLCHAIQLLLSTNHSINAISELSGFSSHTNFTNQFKNYLNFSPKQFRTLL 249
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 252-287 7.62e-06

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: 42.14  E-value: 7.62e-06
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 983589142  252 TGMTIYEISELLGFSdPTNFTRLFRRRVGISPKAFR 287
Cdd:pfam00165   7 TNLTIADIADELGFS-RSYFSRLFKKYTGVTPSQYR 41
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 175-290 8.40e-05

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 43.48  E-value: 8.40e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 983589142 175 QRHTQAQRPQRAREYLngfIQLVEETYR-EHVKVEDLAHRLGISVSHLNGTCRELAGQPALQIMHERQLLEAKRLLTYT- 252
Cdd:PRK09685 187 QRESVQPRRERQFQKV---VALIDQSIQeEILRPEWIAGELGISVRSLYRLFAEQGLVVAQYIRNRRLDRCADDLRPAAd 263

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 983589142 253 GMTIYEISELLGFSDPTNFTRLFRRRVGISPKAFRDRL 290
Cdd:PRK09685 264 DEKITSIAYKWGFSDSSHFSTAFKQRFGVSPGEYRRKF 301
cupin_YobQ-like_N cd07003
Bacillus subtilis YobQ and related proteins, N-terminal cupin domain; This family includes ...
 35-102 2.74e-04

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: 38.53  E-value: 2.74e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 983589142  35 RSREHhweIKPHRHADLCQLLFVFKGQAELEIEGRRTQLTEPAVQILPPLSVHGFRFSEDVEGYVVTL 102
Cdd:cd07003    1 RTYSH---DQSSHSHEHAQLVLPLSGSLELEVEGRGSRVKPDIGLYIPPNAEHRFAGSSDNRCLVLDL 65
Cupin_2 pfam07883
Cupin domain; This family represents the conserved barrel domain of the 'cupin' superfamily ( ...
 42-100 2.88e-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: 38.39  E-value: 2.88e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 983589142   42 EIKPHRHADLCQLLFVFKGQAELEIEGRRTQLTEPAVQILPPLSVHGFR--FSEDVEGYVV 100
Cdd:pfam07883  10 SSPPHRHPGEDEFFYVLEGEGELTVDGEEVVLKAGDSVYFPAGVPHRFRntGDEPARLLDV 70
PRK10371 PRK10371
transcriptional regulator MelR;
184-287 1.12e-03

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 39.80  E-value: 1.12e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 983589142 184 QRAREYLNGFIQLVEETYREHVKVEDLAHRLGISVSHLNGTCRELAGQPALQIMHERQLLEAKRLLTYTGMTIYEISELL 263
Cdd:PRK10371 187 RHAQFYVSQMLGFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLSDTDKSILDIALTA 266

                         90       100
                 ....*....|....*....|....
gi 983589142 264 GFSDPTNFTRLFRRRVGISPKAFR 287
Cdd:PRK10371 267 GFRSSSRFYSTFGKYVGMSPQQYR 290
cupin_RmlC-like cd02208
RmlC-like cupin superfamily; This superfamily contains proteins similar to the RmlC (dTDP ...
 38-90 1.14e-03

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: 37.08  E-value: 1.14e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 983589142  38 EHHWEIKPHRHADLCQLLFVFKGQAELEIE-GRRTQLTEPAVQILPPLSVHGFR 90
Cdd:cd02208    7 PPGTSSPPHWHPEQDEIFYVLSGEGELTLDdGETVELKAGDIVLIPPGVPHSFV 60
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
209-290 1.59e-03

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 39.50  E-value: 1.59e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 983589142 209 DLAHRLGISVSHLNGTCRELAGQPALQIMHERQLLEAKRLLTYTGMTIYEISELLGFSDPTNFTRLFRRRVGISPKAFRD 288
Cdd:PRK13501 197 DFCHKNQLVERSLKQLFRQQTGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFSAVFTREAGMTPRDYRQ 276


                 ..
gi 983589142 289 RL 290
Cdd:PRK13501 277 RF 278
ManC COG0662
Mannose-6-phosphate isomerase, cupin superfamily [Carbohydrate transport and metabolism];
41-105 2.81e-03

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


Pssm-ID: 440426 [Multi-domain]  Cd Length: 114  Bit Score: 37.04  E-value: 2.81e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 983589142  41 WEIKPHRHADLCQLLFVFKGQAELEIEGRRTQLTEPAVQILPPLSVHGFRFSEDVEGYVVTLAAP 105
Cdd:COG0662   38 AELSLHVHPHRDEFFYVLEGTGEVTIGDEEVELKAGDSVYIPAGVPHRLRNPGDEPLELLEVQAP 102
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
139-287 4.45e-03

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 38.11  E-value: 4.45e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 983589142 139 LFSALQNEYMGHQPAREMLMHALVSVIMVWVSRQvmqRHTQAQRPQRARE-YLNGFIQLVEETYREHVKVEDLAHRLGIS 217
Cdd:PRK13502 129 VINQLEHESNGRDPLANEMAELLFGQLVMTLKRH---RYATDDLPATSREtLLDKLITALANSLECPFALDAFCQQEQCS 205

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 983589142 218 VSHLNGTCRELAGQPALQIMHERQLLEAKRLLTYTGMTIYEISELLGFSDPTNFTRLFRRRVGISPKAFR 287
Cdd:PRK13502 206 ERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQCGFEDSNYFSVVFTRETGMTPSQWR 275
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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