NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|15595445|ref|NP_248939|]
View 

transcriptional regulator [Pseudomonas aeruginosa PAO1]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

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 ...
 8-105 1.61e-50

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: 161.51  E-value: 1.61e-50
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445   8 VPVFKLYGAPLEWPTPDLLHCESIPARSRLHDWEIKPHRHADLAQLLYVRKGWAQLQVEGEPTRVEQPSIQFVPPLCIHG 87
Cdd:cd06999   1 IPTYALYGESAAAPTPDFLHCETIAARSRLHDWEIAPHRHADLFQVLYIESGGGEVRLDGRTHPLSAPALVVVPPGVVHG 80

                        90
                ....*....|....*...
gi 15595445  88 FQFSERIDGYVLTLAAPL 105
Cdd:cd06999  81 FRFSPDTDGHVLTLADPL 98
HpaA super family cl31189
4-hydroxyphenylacetate catabolism regulatory protein HpaA; This putative transcriptional ...
 44-285 3.29e-41

4-hydroxyphenylacetate catabolism regulatory protein HpaA; This putative transcriptional regulator, which contains both the substrate-binding, dimerization domain (pfam02311) and the helix-turn-helix DNA-binding domain (pfam00165) of the AraC famil, is located proximal to genes of the 4-hydroxyphenylacetate catabolism pathway.


The actual alignment was detected with superfamily member TIGR02297:

Pssm-ID: 131350 [Multi-domain]  Cd Length: 287  Bit Score: 143.79  E-value: 3.29e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445    44 PHRHADLAQLLYVRKGWAQLQVEGEPTRVEQPSIQFVPPLCIHGFQFSERIDGYVLTLAAPLLARL-QAHLGAQRQALEA 122
Cdd:TIGR02297  38 VHFHDRYYQLHYLTEGSIALQLDEHEYSEYAPCFFLTPPSVPHGFVTDLDADGHVLTVRQELVWQLlESLKGDIGDAFYP 117

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445   123 PG--LYPVGADRRY--IDTLFDAIDGEYAGAAPARELLLQSLIGVLAVWLGRQVMVRRAEARPGRGQEYL-SAFSQLVER 197
Cdd:TIGR02297 118 MCieLSPQEEAEQIakLEYLFELLASEYRQHTDGRQTALQALAQLILIELLRLSKSNEKSTSPRNNELYLfNRFNFLIEE 197

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445   198 HFREHLGIDEYARRLGISPAHLNGVARRLSGQTALGIVHQRLLLEAKRDLVYTAMTVNEIADRLGFSEPAYFTRFFKRLS 277
Cdd:TIGR02297 198 NYKQHLRLPEYADRLGISESRLNDICRRFSALSPKRLIIERVMQEARRLLLFTQHSINQIAYDLGYKDPAYFARFFQKET 277


                  ....*...
gi 15595445   278 GVSPSVFR 285
Cdd:TIGR02297 278 GLSPSAFR 285
 
Name Accession Description Interval E-value
cupin_HpaA-like_N cd06999
AraC/XylS family transcriptional regulators similar to HpaA, N-terminal cupin domain; Members ...
 8-105 1.61e-50

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: 161.51  E-value: 1.61e-50
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445   8 VPVFKLYGAPLEWPTPDLLHCESIPARSRLHDWEIKPHRHADLAQLLYVRKGWAQLQVEGEPTRVEQPSIQFVPPLCIHG 87
Cdd:cd06999   1 IPTYALYGESAAAPTPDFLHCETIAARSRLHDWEIAPHRHADLFQVLYIESGGGEVRLDGRTHPLSAPALVVVPPGVVHG 80

                        90
                ....*....|....*...
gi 15595445  88 FQFSERIDGYVLTLAAPL 105
Cdd:cd06999  81 FRFSPDTDGHVLTLADPL 98
HpaA TIGR02297
4-hydroxyphenylacetate catabolism regulatory protein HpaA; This putative transcriptional ...
 44-285 3.29e-41

4-hydroxyphenylacetate catabolism regulatory protein HpaA; This putative transcriptional regulator, which contains both the substrate-binding, dimerization domain (pfam02311) and the helix-turn-helix DNA-binding domain (pfam00165) of the AraC famil, is located proximal to genes of the 4-hydroxyphenylacetate catabolism pathway.


Pssm-ID: 131350 [Multi-domain]  Cd Length: 287  Bit Score: 143.79  E-value: 3.29e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445    44 PHRHADLAQLLYVRKGWAQLQVEGEPTRVEQPSIQFVPPLCIHGFQFSERIDGYVLTLAAPLLARL-QAHLGAQRQALEA 122
Cdd:TIGR02297  38 VHFHDRYYQLHYLTEGSIALQLDEHEYSEYAPCFFLTPPSVPHGFVTDLDADGHVLTVRQELVWQLlESLKGDIGDAFYP 117

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445   123 PG--LYPVGADRRY--IDTLFDAIDGEYAGAAPARELLLQSLIGVLAVWLGRQVMVRRAEARPGRGQEYL-SAFSQLVER 197
Cdd:TIGR02297 118 MCieLSPQEEAEQIakLEYLFELLASEYRQHTDGRQTALQALAQLILIELLRLSKSNEKSTSPRNNELYLfNRFNFLIEE 197

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445   198 HFREHLGIDEYARRLGISPAHLNGVARRLSGQTALGIVHQRLLLEAKRDLVYTAMTVNEIADRLGFSEPAYFTRFFKRLS 277
Cdd:TIGR02297 198 NYKQHLRLPEYADRLGISESRLNDICRRFSALSPKRLIIERVMQEARRLLLFTQHSINQIAYDLGYKDPAYFARFFQKET 277


                  ....*...
gi 15595445   278 GVSPSVFR 285
Cdd:TIGR02297 278 GLSPSAFR 285
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
203-285 1.10e-22

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 89.15  E-value: 1.10e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445    203 LGIDEYARRLGISPAHLNGVARRLSGQTALGIVHQRLLLEAKRDLVYTAMTVNEIADRLGFSEPAYFTRFFKRLSGVSPS 282
Cdd:smart00342   2 LTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPS 81


                   ...
gi 15595445    283 VFR 285
Cdd:smart00342  82 EYR 84
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
69-287 2.12e-21

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 90.61  E-value: 2.12e-21
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445  69 PTRVEQPSIQFVPPLCIHGFQFSERIDGYVLTLAAPLLARLQAHLGAQRQALEAPGLYPVGADRRYIDTLFDAIDGEYAG 148
Cdd:COG2207  35 VLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLLALLALLLLVGLLLLLLLLLLLLLLLLLLLLL 114

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445 149 AAPARELLLQSLIGVLAVWLGRQVMVRRAEARPGRGQEYLSAFSQLVERHFREHLGIDEYARRLGISPAHLNGVARRLSG 228
Cdd:COG2207 115 LLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLTLEELARELGLSPRTLSRLFKEETG 194

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 15595445 229 QTALGIVHQRLLLEAKRDLVYTAMTVNEIADRLGFSEPAYFTRFFKRLSGVSPSVFRKG 287
Cdd:COG2207 195 TSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKR 253
HTH_18 pfam12833
Helix-turn-helix domain;
208-286 4.68e-20

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 82.25  E-value: 4.68e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445   208 YARRLGISPAHLNGVARRLSGQTALGIVHQRLLLEAKRDLVY-TAMTVNEIADRLGFSEPAYFTRFFKRLSGVSPSVFRK 286
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEdTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
130-287 8.99e-15

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 72.70  E-value: 8.99e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445  130 ADRRYIDTLFDAIDGEYAGAAPARELLLQSLIgvlavwlgRQVMVRRAEARPGRGQEYLS----AFSQLVERHFREHLGI 205
Cdd:PRK10572 131 ALQPEFSDLFGQIEQAGQSEGRYSELLAMNLL--------ERLLLRCMEAIPESLHPPMDprvrEACQYISDHLASEFDI 202

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445  206 DEYARRLGISPAHLNGVARRLSGQTALGIVHQRLLLEAKRDLVYTAMTVNEIADRLGFSEPAYFTRFFKRLSGVSPSVFR 285
Cdd:PRK10572 203 ESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQLYFSRVFKKCTGASPSEFR 282


                 ..
gi 15595445  286 KG 287
Cdd:PRK10572 283 AR 284
QdoI COG1917
Cupin domain protein related to quercetin dioxygenase [General function prediction only];
40-106 1.01e-05

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


Pssm-ID: 441521 [Multi-domain]  Cd Length: 99  Bit Score: 43.30  E-value: 1.01e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 15595445  40 WEIKPHRHaDLAQLLYVRKGWAQLQVEGEPTRVEQPSIQFVPPLCIHGFQFSERIDGYVLTLAAPLL 106
Cdd:COG1917  34 ARTPWHSH-PGEELIYVLEGEGEVEVGGEEYELKPGDVVFIPPGVPHAFRNLGDEPAVLLVVFSPGL 99
AraC_binding pfam02311
AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization ...
 27-161 6.88e-05

AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization domain of the bacterial gene regulatory protein AraC. The domain is found in conjunction with the helix-turn-helix (HTH) DNA-binding motif pfam00165. This domain is distantly related to the Cupin domain pfam00190.


Pssm-ID: 396749 [Multi-domain]  Cd Length: 134  Bit Score: 42.04  E-value: 6.88e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445    27 HCESIPARSRLHDWEIKPHRHaDLAQLLYVRKGWAQLQVEGEPTRVEQPSIQFVPPLCIHGFQ--FSERIDGYVLTLAAP 104
Cdd:pfam02311   1 NPGLEGIEARYPGHSFPPHVH-DFYVIGYIERGVGRFRLNGRTYHLGPGDLFLLPPGEPHDYEpeSEDGWRYRWLYFEPE 79

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 15595445   105 LLARLQAHLGAQrqaleaPGLYPVGADRRYIDTLFDAIDGEYAGAAPARELLLQSLI 161
Cdd:pfam02311  80 LLERILADISIL------AGGPLPLLRDPELAALLRALFRLLEEAGRSDDLLAEALL 130
 
Name Accession Description Interval E-value
cupin_HpaA-like_N cd06999
AraC/XylS family transcriptional regulators similar to HpaA, N-terminal cupin domain; Members ...
 8-105 1.61e-50

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: 161.51  E-value: 1.61e-50
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445   8 VPVFKLYGAPLEWPTPDLLHCESIPARSRLHDWEIKPHRHADLAQLLYVRKGWAQLQVEGEPTRVEQPSIQFVPPLCIHG 87
Cdd:cd06999   1 IPTYALYGESAAAPTPDFLHCETIAARSRLHDWEIAPHRHADLFQVLYIESGGGEVRLDGRTHPLSAPALVVVPPGVVHG 80

                        90
                ....*....|....*...
gi 15595445  88 FQFSERIDGYVLTLAAPL 105
Cdd:cd06999  81 FRFSPDTDGHVLTLADPL 98
HpaA TIGR02297
4-hydroxyphenylacetate catabolism regulatory protein HpaA; This putative transcriptional ...
 44-285 3.29e-41

4-hydroxyphenylacetate catabolism regulatory protein HpaA; This putative transcriptional regulator, which contains both the substrate-binding, dimerization domain (pfam02311) and the helix-turn-helix DNA-binding domain (pfam00165) of the AraC famil, is located proximal to genes of the 4-hydroxyphenylacetate catabolism pathway.


Pssm-ID: 131350 [Multi-domain]  Cd Length: 287  Bit Score: 143.79  E-value: 3.29e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445    44 PHRHADLAQLLYVRKGWAQLQVEGEPTRVEQPSIQFVPPLCIHGFQFSERIDGYVLTLAAPLLARL-QAHLGAQRQALEA 122
Cdd:TIGR02297  38 VHFHDRYYQLHYLTEGSIALQLDEHEYSEYAPCFFLTPPSVPHGFVTDLDADGHVLTVRQELVWQLlESLKGDIGDAFYP 117

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445   123 PG--LYPVGADRRY--IDTLFDAIDGEYAGAAPARELLLQSLIGVLAVWLGRQVMVRRAEARPGRGQEYL-SAFSQLVER 197
Cdd:TIGR02297 118 MCieLSPQEEAEQIakLEYLFELLASEYRQHTDGRQTALQALAQLILIELLRLSKSNEKSTSPRNNELYLfNRFNFLIEE 197

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445   198 HFREHLGIDEYARRLGISPAHLNGVARRLSGQTALGIVHQRLLLEAKRDLVYTAMTVNEIADRLGFSEPAYFTRFFKRLS 277
Cdd:TIGR02297 198 NYKQHLRLPEYADRLGISESRLNDICRRFSALSPKRLIIERVMQEARRLLLFTQHSINQIAYDLGYKDPAYFARFFQKET 277


                  ....*...
gi 15595445   278 GVSPSVFR 285
Cdd:TIGR02297 278 GLSPSAFR 285
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
203-285 1.10e-22

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 89.15  E-value: 1.10e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445    203 LGIDEYARRLGISPAHLNGVARRLSGQTALGIVHQRLLLEAKRDLVYTAMTVNEIADRLGFSEPAYFTRFFKRLSGVSPS 282
Cdd:smart00342   2 LTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPS 81


                   ...
gi 15595445    283 VFR 285
Cdd:smart00342  82 EYR 84
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
69-287 2.12e-21

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 90.61  E-value: 2.12e-21
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445  69 PTRVEQPSIQFVPPLCIHGFQFSERIDGYVLTLAAPLLARLQAHLGAQRQALEAPGLYPVGADRRYIDTLFDAIDGEYAG 148
Cdd:COG2207  35 VLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLLALLALLLLVGLLLLLLLLLLLLLLLLLLLLL 114

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445 149 AAPARELLLQSLIGVLAVWLGRQVMVRRAEARPGRGQEYLSAFSQLVERHFREHLGIDEYARRLGISPAHLNGVARRLSG 228
Cdd:COG2207 115 LLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLTLEELARELGLSPRTLSRLFKEETG 194

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 15595445 229 QTALGIVHQRLLLEAKRDLVYTAMTVNEIADRLGFSEPAYFTRFFKRLSGVSPSVFRKG 287
Cdd:COG2207 195 TSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKR 253
HTH_18 pfam12833
Helix-turn-helix domain;
208-286 4.68e-20

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 82.25  E-value: 4.68e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445   208 YARRLGISPAHLNGVARRLSGQTALGIVHQRLLLEAKRDLVY-TAMTVNEIADRLGFSEPAYFTRFFKRLSGVSPSVFRK 286
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEdTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
130-287 8.99e-15

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 72.70  E-value: 8.99e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445  130 ADRRYIDTLFDAIDGEYAGAAPARELLLQSLIgvlavwlgRQVMVRRAEARPGRGQEYLS----AFSQLVERHFREHLGI 205
Cdd:PRK10572 131 ALQPEFSDLFGQIEQAGQSEGRYSELLAMNLL--------ERLLLRCMEAIPESLHPPMDprvrEACQYISDHLASEFDI 202

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445  206 DEYARRLGISPAHLNGVARRLSGQTALGIVHQRLLLEAKRDLVYTAMTVNEIADRLGFSEPAYFTRFFKRLSGVSPSVFR 285
Cdd:PRK10572 203 ESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQLYFSRVFKKCTGASPSEFR 282


                 ..
gi 15595445  286 KG 287
Cdd:PRK10572 283 AR 284
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 147-286 1.31e-12

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: 66.72  E-value: 1.31e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445 147 AGAAPARELLLqSLIG-----VLAVWLGRQVMVrrAEARPGrGQEYLSAFS--------------QLVERHFREHLGIDE 207
Cdd:COG4977 156 AGGTAGIDLAL-HLVErdhgaELANAVARRLVV--DPRRPG-GQAQFSPLLvplghrdprlaraqAWMEANLEEPLSVDE 231

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445 208 YARRLGISPAHLngvARRLsgQTALGIV----HQRLLLE-AKRDLVYTAMTVNEIADRLGFSEPAYFTRFFKRLSGVSPS 282
Cdd:COG4977 232 LARRAGMSPRTL---ERRF--RAATGTTparyLQRLRLErARRLLETTDLSIEEIAAACGFGSASHFRRAFRRRFGVSPS 306


                ....
gi 15595445 283 VFRK 286
Cdd:COG4977 307 AYRR 310
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
185-285 1.53e-09

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 54.55  E-value: 1.53e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445  185 QEYLSAFSQLVERHFREHLGIDEYARRLGISPAHLNGVARRLSGQTALGIVHQRLLLEAKRDLVYTAMTVNEIADRLGFS 264
Cdd:PRK10219   4 QKIIQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYV 83

                         90       100
                 ....*....|....*....|.
gi 15595445  265 EPAYFTRFFKRLSGVSPSVFR 285
Cdd:PRK10219  84 SQQTFSRVFRRQFDRTPSDYR 104
adjacent_YSIRK TIGR04094
YSIRK-targeted surface antigen transcriptional regulator; Bacteria whose genomes encode only ...
 193-285 1.69e-08

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: 54.68  E-value: 1.69e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445   193 QLVERHFREHLGIDEYARRLGISPAHLNGVARRLSGQTALGIVHQRLLLEAKRdLVYTAMTVNEIADRLGFSEPAYFTRF 272
Cdd:TIGR04094 292 QYINLNLYDPLKVEEIAKQFFMSESKLRKLFKKEMGISIQEYISKRKIEEAKY-LLRSQIPVSEVSNELGFYDLSHFSRT 370

                          90
                  ....*....|...
gi 15595445   273 FKRLSGVSPSVFR 285
Cdd:TIGR04094 371 FKKHTGVSPKQYQ 383
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 193-287 2.71e-07

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: 51.21  E-value: 2.71e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445 193 QLVERHFREHLGIDEYARRLGISPAHLNGVARRLSGQTALGIVHQRLLLEAKRdLVYTAMTVNEIADRLGFSEPAYFTRF 272
Cdd:COG2169  91 RLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQ-LLQTGLSVTDAAYAAGFGSLSRFYEA 169

                        90
                ....*....|....*
gi 15595445 273 FKRLSGVSPSVFRKG 287
Cdd:COG2169 170 FKKLLGMTPSAYRRG 184
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 154-287 2.70e-06

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 47.72  E-value: 2.70e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445  154 ELLLQSLIGVLavwlgRQVMVRRAEARPGRGQEyLSAFSQLVERHFR-EHLGIDEYARRLGISPAHLNGVARRLSGQTAL 232
Cdd:PRK09685 171 EALLEALIALL-----RPALHQRESVQPRRERQ-FQKVVALIDQSIQeEILRPEWIAGELGISVRSLYRLFAEQGLVVAQ 244

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 15595445  233 GIVHQRLLLEAKrDLVYTAM--TVNEIADRLGFSEPAYFTRFFKRLSGVSPSVFRKG 287
Cdd:PRK09685 245 YIRNRRLDRCAD-DLRPAADdeKITSIAYKWGFSDSSHFSTAFKQRFGVSPGEYRRK 300
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
121-288 8.72e-06

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 46.21  E-value: 8.72e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445  121 EAPGLYPV-----GADRRYIDTLFDAIDGEYAGAAPARELLLQSLIGVLAVWLGRQVMVRRAEARPGRGQEYLSafsqLV 195
Cdd:PRK13503 105 EQDGQYPShwrvnQSVLQQVRQLVAQMEQQEESNDLEAIASREILFMQLLVLLRKSSLQENGENSDARLNQLLA----WL 180

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445  196 ERHFREHLGIDEYARRLGISpahLNGVARRLSGQTalGIVHQRL-----LLEAKRDLVYTAMTVNEIADRLGFSEPAYFT 270
Cdd:PRK13503 181 EDHFAEEVNWEALADQFSLS---LRTLHRQLKQQT--GLTPQRYlnrlrLLKARHLLRHSDASVTDIAYRCGFGDSNHFS 255

                        170
                 ....*....|....*...
gi 15595445  271 RFFKRLSGVSPSVFRKGD 288
Cdd:PRK13503 256 TLFRREFSWSPRDIRQGR 273
QdoI COG1917
Cupin domain protein related to quercetin dioxygenase [General function prediction only];
40-106 1.01e-05

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


Pssm-ID: 441521 [Multi-domain]  Cd Length: 99  Bit Score: 43.30  E-value: 1.01e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 15595445  40 WEIKPHRHaDLAQLLYVRKGWAQLQVEGEPTRVEQPSIQFVPPLCIHGFQFSERIDGYVLTLAAPLL 106
Cdd:COG1917  34 ARTPWHSH-PGEELIYVLEGEGEVEVGGEEYELKPGDVVFIPPGVPHAFRNLGDEPAVLLVVFSPGL 99
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 250-286 1.32e-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: 41.37  E-value: 1.32e-05
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 15595445   250 TAMTVNEIADRLGFSePAYFTRFFKRLSGVSPSVFRK 286
Cdd:pfam00165   7 TNLTIADIADELGFS-RSYFSRLFKKYTGVTPSQYRH 42
ftrA PRK09393
transcriptional activator FtrA; Provisional
 191-286 1.32e-05

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 45.73  E-value: 1.32e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445  191 FSQLVErHFREHLG----IDEYARRLGISPAHLngvARRLSGQTALG----IVHQRLLLeAKRDLVYTAMTVNEIADRLG 262
Cdd:PRK09393 220 LGPLID-WMRAHLAephtVASLAARAAMSPRTF---LRRFEAATGMTpaewLLRERLAR-ARDLLESSALSIDQIAERAG 294

                         90       100
                 ....*....|....*....|....
gi 15595445  263 FSEPAYFTRFFKRLSGVSPSVFRK 286
Cdd:PRK09393 295 FGSEESLRHHFRRRAATSPAAYRK 318
PRK10371 PRK10371
transcriptional regulator MelR;
183-286 1.75e-05

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 45.58  E-value: 1.75e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445  183 RGQEYLSAFSQLVERHFREHLGIDEYARRLGISPAHLNGVARRLSGQ------TALGIVHQRLLLEAkrdlvyTAMTVNE 256
Cdd:PRK10371 188 HAQFYVSQMLGFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLtmkqyiTAMRINHVRALLSD------TDKSILD 261

                         90       100       110
                 ....*....|....*....|....*....|
gi 15595445  257 IADRLGFSEPAYFTRFFKRLSGVSPSVFRK 286
Cdd:PRK10371 262 IALTAGFRSSSRFYSTFGKYVGMSPQQYRK 291
cupin_RmlC-like cd02208
RmlC-like cupin superfamily; This superfamily contains proteins similar to the RmlC (dTDP ...
 41-89 5.29e-05

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: 40.54  E-value: 5.29e-05
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|
gi 15595445  41 EIKPHRHADLAQLLYVRKGWAQLQVEGEPTRVEQP-SIQFVPPLCIHGFQ 89
Cdd:cd02208  11 SSPPHWHPEQDEIFYVLSGEGELTLDDGETVELKAgDIVLIPPGVPHSFV 60
AraC_binding pfam02311
AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization ...
 27-161 6.88e-05

AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization domain of the bacterial gene regulatory protein AraC. The domain is found in conjunction with the helix-turn-helix (HTH) DNA-binding motif pfam00165. This domain is distantly related to the Cupin domain pfam00190.


Pssm-ID: 396749 [Multi-domain]  Cd Length: 134  Bit Score: 42.04  E-value: 6.88e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445    27 HCESIPARSRLHDWEIKPHRHaDLAQLLYVRKGWAQLQVEGEPTRVEQPSIQFVPPLCIHGFQ--FSERIDGYVLTLAAP 104
Cdd:pfam02311   1 NPGLEGIEARYPGHSFPPHVH-DFYVIGYIERGVGRFRLNGRTYHLGPGDLFLLPPGEPHDYEpeSEDGWRYRWLYFEPE 79

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 15595445   105 LLARLQAHLGAQrqaleaPGLYPVGADRRYIDTLFDAIDGEYAGAAPARELLLQSLI 161
Cdd:pfam02311  80 LLERILADISIL------AGGPLPLLRDPELAALLRALFRLLEEAGRSDDLLAEALL 130
PRK10296 PRK10296
DNA-binding transcriptional regulator ChbR; Provisional
 213-286 1.58e-04

DNA-binding transcriptional regulator ChbR; Provisional


Pssm-ID: 182362 [Multi-domain]  Cd Length: 278  Bit Score: 42.44  E-value: 1.58e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 15595445  213 GISPAHLNGVARRLSGQTALGIVHQRLLLEAKRDLVYTAMTVNEIADRLGFSEPAYFTRFFKRLSGVSPSVFRK 286
Cdd:PRK10296 199 GKSQEYLTRATRRYYGKTPMQIINEIRINFAKKQLEMTNYSVTDIAFEAGYSSPSLFIKTFKKLTSFTPGSYRK 272
ManC COG0662
Mannose-6-phosphate isomerase, cupin superfamily [Carbohydrate transport and metabolism];
40-104 4.25e-04

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


Pssm-ID: 440426 [Multi-domain]  Cd Length: 114  Bit Score: 39.35  E-value: 4.25e-04
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 15595445  40 WEIKPHRHADLAQLLYVRKGWAQLQVEGEPTRVEQPSIQFVPPLCIHGFQFSERIDGYVLTLAAP 104
Cdd:COG0662  38 AELSLHVHPHRDEFFYVLEGTGEVTIGDEEVELKAGDSVYIPAGVPHRLRNPGDEPLELLEVQAP 102
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
150-285 5.69e-04

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 40.81  E-value: 5.69e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445  150 APARELLLQSLIGVLAVWLGRQVMVRRAEArpgrgQEYLSafSQLVERHFREHLG--IDEYARRLGIspahlngvarrls 227
Cdd:PRK13502 171 ATSRETLLDKLITALANSLECPFALDAFCQ-----QEQCS--ERVLRQQFRAQTGmtINQYLRQVRI------------- 230

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 15595445  228 gqtalgiVHQRLLLEAKRdlvytaMTVNEIADRLGFSEPAYFTRFFKRLSGVSPSVFR 285
Cdd:PRK13502 231 -------CHAQYLLQHSP------LMISEISMQCGFEDSNYFSVVFTRETGMTPSQWR 275
Cupin_2 pfam07883
Cupin domain; This family represents the conserved barrel domain of the 'cupin' superfamily ( ...
 41-88 1.01e-03

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: 36.85  E-value: 1.01e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 15595445    41 EIKPHRHADLAQLLYVRKGWAQLQVEGEPTRVEQPSIQFVPPLCIHGF 88
Cdd:pfam07883  10 SSPPHRHPGEDEFFYVLEGEGELTVDGEEVVLKAGDSVYFPAGVPHRF 57
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
229-286 1.35e-03

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 39.50  E-value: 1.35e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 15595445  229 QTALGIVH---QRLLLEAKRDLVYTAMTVNEIADRLGFSEPAYFTRFFKRLSGVSPSVFRK 286
Cdd:PRK13501 216 QTGMSISHylrQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFSAVFTREAGMTPRDYRQ 276
cupin_bxe_c0505 cd06980
uncharacterized protein bxe_c0505, cupin domain; This family includes mostly bacterial ...
 43-86 1.70e-03

uncharacterized protein bxe_c0505, cupin domain; This family includes mostly bacterial proteins homologous to bxe_c0505, a Burkholderia xenovorans protein of unknown function. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380385 [Multi-domain]  Cd Length: 105  Bit Score: 37.16  E-value: 1.70e-03
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 15595445  43 KPHRHADLAQLLYVRKGWAQLQVEG-EPTRVEQPSIQFVPPLCIH 86
Cdd:cd06980  37 GWHYHDCDFQMVYVLKGWVKFEFEGgGEVRLEAGDCVYQPPGIRH 81
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
195-285 1.86e-03

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 37.77  E-value: 1.86e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15595445  195 VERHFREHLGIDEYARRLGISPAHLNGVARRLSGQTALGIVHQRLLLEAKRDLVYTAMTVNEIADRLGFSEPAYFTRFFK 274
Cdd:PRK11511  18 IEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYLAERYGFESQQTLTRTFK 97

                         90
                 ....*....|.
gi 15595445  275 RLSGVSPSVFR 285
Cdd:PRK11511  98 NYFDVPPHKYR 108
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH