|
Name |
Accession |
Description |
Interval |
E-value |
| HpaA |
TIGR02297 |
4-hydroxyphenylacetate catabolism regulatory protein HpaA; This putative transcriptional ... |
6-291 |
7.48e-129 |
|
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: 367.98 E-value: 7.48e-129
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 6 IANIDINKDYDESLGTEEVHYQSFSRMAAFFGRDMQAHRHDRYFQMHYLDTGQIELQLDDHRYSVQAPLFVITPPSVPHA 85
Cdd:TIGR02297 2 IPNIDIGKVYDGRYADSDVHYETFDNLALFFGRNMPVHFHDRYYQLHYLTEGSIALQLDEHEYSEYAPCFFLTPPSVPHG 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 86 FITESDSDGHVLTVHEELIWPLLEVLYPGTRETFGLPGICLSLADKPDELAALAHYWQLIRRESTAQLPGREHTLALLAQ 165
Cdd:TIGR02297 82 FVTDLDADGHVLTVRQELVWQLLESLKGDIGDAFYPMCIELSPQEEAEQIAKLEYLFELLASEYRQHTDGRQTALQALAQ 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 166 AVFTLLLRNARLDDHAASGMRGELKLFQRFNQMIDSHYHQHWTVPDYARELHLTESRLTDICRRFANRSPKRLIFDRQLR 245
Cdd:TIGR02297 162 LILIELLRLSKSNEKSTSPRNNELYLFNRFNFLIEENYKQHLRLPEYADRLGISESRLNDICRRFSALSPKRLIIERVMQ 241
|
250 260 270 280
....*....|....*....|....*....|....*....|....*.
gi 488976599 246 EAKRLLLFSDSAVNEIAWQLGFKDPAYFARFFSRQVGCSPSSYRAQ 291
Cdd:TIGR02297 242 EARRLLLFTQHSINQIAYDLGYKDPAYFARFFQKETGLSPSAFRDR 287
|
|
| cupin_HpaA-like_N |
cd06999 |
AraC/XylS family transcriptional regulators similar to HpaA, N-terminal cupin domain; Members ... |
15-103 |
1.19e-29 |
|
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: 107.97 E-value: 1.19e-29
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 15 YDESLGT---EEVHYQSFSRMAAFFGRDMQAHRHDRYFQMHYLDTGQIELQLDDHRYSVQAPLFVITPPSVPHAFITESD 91
Cdd:cd06999 7 YGESAAAptpDFLHCETIAARSRLHDWEIAPHRHADLFQVLYIESGGGEVRLDGRTHPLSAPALVVVPPGVVHGFRFSPD 86
|
90
....*....|..
gi 488976599 92 SDGHVLTVHEEL 103
Cdd:cd06999 87 TDGHVLTLADPL 98
|
|
| HTH_ARAC |
smart00342 |
helix_turn_helix, arabinose operon control protein; |
207-289 |
1.20e-24 |
|
helix_turn_helix, arabinose operon control protein;
Pssm-ID: 197666 [Multi-domain] Cd Length: 84 Bit Score: 94.54 E-value: 1.20e-24
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 207 WTVPDYARELHLTESRLTDICRRFANRSPKRLIFDRQLREAKRLLLFSDSAVNEIAWQLGFKDPAYFARFFSRQVGCSPS 286
Cdd:smart00342 2 LTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPS 81
|
...
gi 488976599 287 SYR 289
Cdd:smart00342 82 EYR 84
|
|
| AraC |
COG2207 |
AraC-type DNA-binding domain and AraC-containing proteins [Transcription]; |
38-291 |
8.98e-21 |
|
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
Pssm-ID: 441809 [Multi-domain] Cd Length: 258 Bit Score: 89.07 E-value: 8.98e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 38 RDMQAHRHDRYFQMHYLDTGQIELQLDDHRYSVQAPLFVITPPSVPHAFITESDSDGHVLTVHEELIWPLLEVLYPGTRE 117
Cdd:COG2207 4 LILLLLLLLLLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLL 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 118 TFGLPGICLSLADKPDELAALAHYWQLIRRESTAQLPGREHTLALLAQAVFTLLLRNARLDDHAASGMRGELKLFQRFNQ 197
Cdd:COG2207 84 ALLALLLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLL 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 198 MIDSHYhqhwTVPDYARELHLTESRLTDICRRFANRSPKRLIFDRQLREAKRLLLFSDSAVNEIAWQLGFKDPAYFARFF 277
Cdd:COG2207 164 LLLLLL----TLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAF 239
|
250
....*....|....
gi 488976599 278 SRQVGCSPSSYRAQ 291
Cdd:COG2207 240 KKRFGVTPSEYRKR 253
|
|
| HTH_18 |
pfam12833 |
Helix-turn-helix domain; |
212-291 |
2.46e-20 |
|
Helix-turn-helix domain;
Pssm-ID: 432818 [Multi-domain] Cd Length: 81 Bit Score: 83.02 E-value: 2.46e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 212 YARELHLTESRLTDICRRFANRSPKRLIFDRQLREAKRLLL-FSDSAVNEIAWQLGFKDPAYFARFFSRQVGCSPSSYRA 290
Cdd:pfam12833 1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLeDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
|
.
gi 488976599 291 Q 291
Cdd:pfam12833 81 R 81
|
|
| PRK10572 |
PRK10572 |
arabinose operon transcriptional regulator AraC; |
197-291 |
2.25e-11 |
|
arabinose operon transcriptional regulator AraC;
Pssm-ID: 236717 [Multi-domain] Cd Length: 290 Bit Score: 63.07 E-value: 2.25e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 197 QMIDSHYHQHWTVPDYARELHLTESRLTDICRR------FANRSPKRLIfdrqlrEAKRLLLFSDSAVNEIAWQLGFKDP 270
Cdd:PRK10572 190 QYISDHLASEFDIESVAQHVCLSPSRLAHLFRQqlgisvLRWREDQRIS------RAKLLLQTTRMPIATIGRNVGYDDQ 263
|
90 100
....*....|....*....|.
gi 488976599 271 AYFARFFSRQVGCSPSSYRAQ 291
Cdd:PRK10572 264 LYFSRVFKKCTGASPSEFRAR 284
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| HpaA |
TIGR02297 |
4-hydroxyphenylacetate catabolism regulatory protein HpaA; This putative transcriptional ... |
6-291 |
7.48e-129 |
|
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: 367.98 E-value: 7.48e-129
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 6 IANIDINKDYDESLGTEEVHYQSFSRMAAFFGRDMQAHRHDRYFQMHYLDTGQIELQLDDHRYSVQAPLFVITPPSVPHA 85
Cdd:TIGR02297 2 IPNIDIGKVYDGRYADSDVHYETFDNLALFFGRNMPVHFHDRYYQLHYLTEGSIALQLDEHEYSEYAPCFFLTPPSVPHG 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 86 FITESDSDGHVLTVHEELIWPLLEVLYPGTRETFGLPGICLSLADKPDELAALAHYWQLIRRESTAQLPGREHTLALLAQ 165
Cdd:TIGR02297 82 FVTDLDADGHVLTVRQELVWQLLESLKGDIGDAFYPMCIELSPQEEAEQIAKLEYLFELLASEYRQHTDGRQTALQALAQ 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 166 AVFTLLLRNARLDDHAASGMRGELKLFQRFNQMIDSHYHQHWTVPDYARELHLTESRLTDICRRFANRSPKRLIFDRQLR 245
Cdd:TIGR02297 162 LILIELLRLSKSNEKSTSPRNNELYLFNRFNFLIEENYKQHLRLPEYADRLGISESRLNDICRRFSALSPKRLIIERVMQ 241
|
250 260 270 280
....*....|....*....|....*....|....*....|....*.
gi 488976599 246 EAKRLLLFSDSAVNEIAWQLGFKDPAYFARFFSRQVGCSPSSYRAQ 291
Cdd:TIGR02297 242 EARRLLLFTQHSINQIAYDLGYKDPAYFARFFQKETGLSPSAFRDR 287
|
|
| cupin_HpaA-like_N |
cd06999 |
AraC/XylS family transcriptional regulators similar to HpaA, N-terminal cupin domain; Members ... |
15-103 |
1.19e-29 |
|
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: 107.97 E-value: 1.19e-29
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 15 YDESLGT---EEVHYQSFSRMAAFFGRDMQAHRHDRYFQMHYLDTGQIELQLDDHRYSVQAPLFVITPPSVPHAFITESD 91
Cdd:cd06999 7 YGESAAAptpDFLHCETIAARSRLHDWEIAPHRHADLFQVLYIESGGGEVRLDGRTHPLSAPALVVVPPGVVHGFRFSPD 86
|
90
....*....|..
gi 488976599 92 SDGHVLTVHEEL 103
Cdd:cd06999 87 TDGHVLTLADPL 98
|
|
| HTH_ARAC |
smart00342 |
helix_turn_helix, arabinose operon control protein; |
207-289 |
1.20e-24 |
|
helix_turn_helix, arabinose operon control protein;
Pssm-ID: 197666 [Multi-domain] Cd Length: 84 Bit Score: 94.54 E-value: 1.20e-24
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 207 WTVPDYARELHLTESRLTDICRRFANRSPKRLIFDRQLREAKRLLLFSDSAVNEIAWQLGFKDPAYFARFFSRQVGCSPS 286
Cdd:smart00342 2 LTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPS 81
|
...
gi 488976599 287 SYR 289
Cdd:smart00342 82 EYR 84
|
|
| AraC |
COG2207 |
AraC-type DNA-binding domain and AraC-containing proteins [Transcription]; |
38-291 |
8.98e-21 |
|
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
Pssm-ID: 441809 [Multi-domain] Cd Length: 258 Bit Score: 89.07 E-value: 8.98e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 38 RDMQAHRHDRYFQMHYLDTGQIELQLDDHRYSVQAPLFVITPPSVPHAFITESDSDGHVLTVHEELIWPLLEVLYPGTRE 117
Cdd:COG2207 4 LILLLLLLLLLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLL 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 118 TFGLPGICLSLADKPDELAALAHYWQLIRRESTAQLPGREHTLALLAQAVFTLLLRNARLDDHAASGMRGELKLFQRFNQ 197
Cdd:COG2207 84 ALLALLLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLL 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 198 MIDSHYhqhwTVPDYARELHLTESRLTDICRRFANRSPKRLIFDRQLREAKRLLLFSDSAVNEIAWQLGFKDPAYFARFF 277
Cdd:COG2207 164 LLLLLL----TLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAF 239
|
250
....*....|....
gi 488976599 278 SRQVGCSPSSYRAQ 291
Cdd:COG2207 240 KKRFGVTPSEYRKR 253
|
|
| HTH_18 |
pfam12833 |
Helix-turn-helix domain; |
212-291 |
2.46e-20 |
|
Helix-turn-helix domain;
Pssm-ID: 432818 [Multi-domain] Cd Length: 81 Bit Score: 83.02 E-value: 2.46e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 212 YARELHLTESRLTDICRRFANRSPKRLIFDRQLREAKRLLL-FSDSAVNEIAWQLGFKDPAYFARFFSRQVGCSPSSYRA 290
Cdd:pfam12833 1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLeDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
|
.
gi 488976599 291 Q 291
Cdd:pfam12833 81 R 81
|
|
| GlxA |
COG4977 |
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ... |
197-291 |
2.99e-15 |
|
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: 74.42 E-value: 2.99e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 197 QMIDSHYHQHWTVPDYARELHLTESRLTdicRRFA---NRSPKRLIfdRQLR--EAKRLLLFSDSAVNEIAWQLGFKDPA 271
Cdd:COG4977 217 AWMEANLEEPLSVDELARRAGMSPRTLE---RRFRaatGTTPARYL--QRLRleRARRLLETTDLSIEEIAAACGFGSAS 291
|
90 100
....*....|....*....|
gi 488976599 272 YFARFFSRQVGCSPSSYRAQ 291
Cdd:COG4977 292 HFRRAFRRRFGVSPSAYRRR 311
|
|
| PRK10572 |
PRK10572 |
arabinose operon transcriptional regulator AraC; |
197-291 |
2.25e-11 |
|
arabinose operon transcriptional regulator AraC;
Pssm-ID: 236717 [Multi-domain] Cd Length: 290 Bit Score: 63.07 E-value: 2.25e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 197 QMIDSHYHQHWTVPDYARELHLTESRLTDICRR------FANRSPKRLIfdrqlrEAKRLLLFSDSAVNEIAWQLGFKDP 270
Cdd:PRK10572 190 QYISDHLASEFDIESVAQHVCLSPSRLAHLFRQqlgisvLRWREDQRIS------RAKLLLQTTRMPIATIGRNVGYDDQ 263
|
90 100
....*....|....*....|.
gi 488976599 271 AYFARFFSRQVGCSPSSYRAQ 291
Cdd:PRK10572 264 LYFSRVFKKCTGASPSEFRAR 284
|
|
| AdaA |
COG2169 |
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ... |
181-291 |
1.37e-09 |
|
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: 58.14 E-value: 1.37e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 181 AASGMRGELKLFQRFNQMIDSHYHQHWTVPDYARELHLTESRLTDICRRFANRSPKRLIFDRQLREAKRLLLfSDSAVNE 260
Cdd:COG2169 75 LAPGSPPRADLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLLQ-TGLSVTD 153
|
90 100 110
....*....|....*....|....*....|.
gi 488976599 261 IAWQLGFKDPAYFARFFSRQVGCSPSSYRAQ 291
Cdd:COG2169 154 AAYAAGFGSLSRFYEAFKKLLGMTPSAYRRG 184
|
|
| Cupin_2 |
pfam07883 |
Cupin domain; This family represents the conserved barrel domain of the 'cupin' superfamily ( ... |
37-100 |
2.50e-08 |
|
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: 49.95 E-value: 2.50e-08
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 488976599 37 GRDMQAHRHDRYFQMHYLDTGQIELQLDDHRYSVQAPLFVITPPSVPHAFITESDSDGHVLTVH 100
Cdd:pfam07883 8 GESSPPHRHPGEDEFFYVLEGEGELTVDGEEVVLKAGDSVYFPAGVPHRFRNTGDEPARLLDVY 71
|
|
| PRK13501 |
PRK13501 |
HTH-type transcriptional activator RhaR; |
143-291 |
1.20e-07 |
|
HTH-type transcriptional activator RhaR;
Pssm-ID: 184092 [Multi-domain] Cd Length: 290 Bit Score: 51.83 E-value: 1.20e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 143 QLIRRESTAQLPGREHTLALLAQAVFTLLlRNARLDDHAASGMRGE-LKLFQrfnQMIDSHYHQHWTVPDYARELHLTES 221
Cdd:PRK13501 132 QLAQESRKTDSWSIQLTEVLLLQLAIVLK-RHRYRAEQAHLLPDGEqLDLIM---SALQQSLGAYFDMADFCHKNQLVER 207
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 222 RLTDICRRFANRSPKRLIFDRQLREAKRLLLFSDSAVNEIAWQLGFKDPAYFARFFSRQVGCSPSSYRAQ 291
Cdd:PRK13501 208 SLKQLFRQQTGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFSAVFTREAGMTPRDYRQR 277
|
|
| ftrA |
PRK09393 |
transcriptional activator FtrA; Provisional |
193-291 |
6.17e-07 |
|
transcriptional activator FtrA; Provisional
Pssm-ID: 181818 [Multi-domain] Cd Length: 322 Bit Score: 49.96 E-value: 6.17e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 193 QRFNQMID---SHYHQHWTVPDYARELHLTESRLTdicRRFAN---RSPKRLIFDRQLREAKRLLLFSDSAVNEIAWQLG 266
Cdd:PRK09393 218 DRLGPLIDwmrAHLAEPHTVASLAARAAMSPRTFL---RRFEAatgMTPAEWLLRERLARARDLLESSALSIDQIAERAG 294
|
90 100
....*....|....*....|....*
gi 488976599 267 FKDPAYFARFFSRQVGCSPSSYRAQ 291
Cdd:PRK09393 295 FGSEESLRHHFRRRAATSPAAYRKR 319
|
|
| cupin_RmlC-like |
cd02208 |
RmlC-like cupin superfamily; This superfamily contains proteins similar to the RmlC (dTDP ... |
29-100 |
4.12e-06 |
|
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: 44.01 E-value: 4.12e-06
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 488976599 29 FSRMAAFFGRDMQAHRHDRYFQMHYLDTGQIELQLDD-HRYSVQAPLFVITPPSVPHAFITESDSDGHVLTVH 100
Cdd:cd02208 1 ISVVTLPPGTSSPPHWHPEQDEIFYVLSGEGELTLDDgETVELKAGDIVLIPPGVPHSFVNTSDEPAVFLVVS 73
|
|
| PRK09685 |
PRK09685 |
DNA-binding transcriptional activator FeaR; Provisional |
164-291 |
5.17e-06 |
|
DNA-binding transcriptional activator FeaR; Provisional
Pssm-ID: 236612 [Multi-domain] Cd Length: 302 Bit Score: 46.95 E-value: 5.17e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 164 AQAVFTLLLRNARLDDHAASGmrGELKLFQRFNQMIDSHYHQHWTVPDY-ARELHLTESRLTdicRRFA--NRSPKRLIF 240
Cdd:PRK09685 173 LLEALIALLRPALHQRESVQP--RRERQFQKVVALIDQSIQEEILRPEWiAGELGISVRSLY---RLFAeqGLVVAQYIR 247
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|...
gi 488976599 241 DRQL-REAKRLLLFS-DSAVNEIAWQLGFKDPAYFARFFSRQVGCSPSSYRAQ 291
Cdd:PRK09685 248 NRRLdRCADDLRPAAdDEKITSIAYKWGFSDSSHFSTAFKQRFGVSPGEYRRK 300
|
|
| PRK10371 |
PRK10371 |
transcriptional regulator MelR; |
170-289 |
1.77e-05 |
|
transcriptional regulator MelR;
Pssm-ID: 182416 [Multi-domain] Cd Length: 302 Bit Score: 45.58 E-value: 1.77e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 170 LLLRNARLDDHAASGMRGELKLFQRFNQMIDSHYHQHWTVPDYARELHLTESRLTDICRRFANRSPKRLIFDRQLREAKR 249
Cdd:PRK10371 171 PILVNKTSRTHKNSVSRHAQFYVSQMLGFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRA 250
|
90 100 110 120
....*....|....*....|....*....|....*....|
gi 488976599 250 LLLFSDSAVNEIAWQLGFKDPAYFARFFSRQVGCSPSSYR 289
Cdd:PRK10371 251 LLSDTDKSILDIALTAGFRSSSRFYSTFGKYVGMSPQQYR 290
|
|
| ManC |
COG0662 |
Mannose-6-phosphate isomerase, cupin superfamily [Carbohydrate transport and metabolism]; |
1-100 |
1.99e-05 |
|
Mannose-6-phosphate isomerase, cupin superfamily [Carbohydrate transport and metabolism];
Pssm-ID: 440426 [Multi-domain] Cd Length: 114 Bit Score: 42.82 E-value: 1.99e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 1 MCQHSIANIDINKDYDESLGTEEVHYQSFSRMAAFFGRDMQAHRHDRYFQMHYLDTGQIELQLDDHRYSVQAPLFVITPP 80
Cdd:COG0662 1 MQDVNIEELKAIGWGSYEVLGEGGERLSVKRITVPPGAELSLHVHPHRDEFFYVLEGTGEVTIGDEEVELKAGDSVYIPA 80
|
90 100
....*....|....*....|
gi 488976599 81 SVPHAFITESDSDGHVLTVH 100
Cdd:COG0662 81 GVPHRLRNPGDEPLELLEVQ 100
|
|
| PRK10296 |
PRK10296 |
DNA-binding transcriptional regulator ChbR; Provisional |
219-289 |
3.42e-05 |
|
DNA-binding transcriptional regulator ChbR; Provisional
Pssm-ID: 182362 [Multi-domain] Cd Length: 278 Bit Score: 44.36 E-value: 3.42e-05
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 488976599 219 TESRLTDICRRFANRSPKRLIFDRQLREAKRLLLFSDSAVNEIAWQLGFKDPAYFARFFSRQVGCSPSSYR 289
Cdd:PRK10296 201 SQEYLTRATRRYYGKTPMQIINEIRINFAKKQLEMTNYSVTDIAFEAGYSSPSLFIKTFKKLTSFTPGSYR 271
|
|
| PRK13503 |
PRK13503 |
HTH-type transcriptional activator RhaS; |
234-292 |
8.72e-05 |
|
HTH-type transcriptional activator RhaS;
Pssm-ID: 184094 [Multi-domain] Cd Length: 278 Bit Score: 43.13 E-value: 8.72e-05
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*....
gi 488976599 234 SPKRLIFDRQLREAKRLLLFSDSAVNEIAWQLGFKDPAYFARFFSRQVGCSPSSYRAQK 292
Cdd:PRK13503 215 TPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDSNHFSTLFRREFSWSPRDIRQGR 273
|
|
| PRK13502 |
PRK13502 |
HTH-type transcriptional activator RhaR; |
242-293 |
1.02e-04 |
|
HTH-type transcriptional activator RhaR;
Pssm-ID: 184093 [Multi-domain] Cd Length: 282 Bit Score: 43.12 E-value: 1.02e-04
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*..
gi 488976599 242 RQLR--EAKRLLLFSDSAVNEIAWQLGFKDPAYFARFFSRQVGCSPSSYR---AQKV 293
Cdd:PRK13502 226 RQVRicHAQYLLQHSPLMISEISMQCGFEDSNYFSVVFTRETGMTPSQWRhlsNQSD 282
|
|
| PRK15185 |
PRK15185 |
transcriptional regulator HilD; Provisional |
168-288 |
1.12e-04 |
|
transcriptional regulator HilD; Provisional
Pssm-ID: 185107 [Multi-domain] Cd Length: 309 Bit Score: 43.06 E-value: 1.12e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 168 FTLLLRNARLDDHAASGM---RGELKLFQRFNQMIDSHYHQHWTVPDYARELHLTESRLTdicRRFANR--SPKRLIFDR 242
Cdd:PRK15185 181 FLLFLLTAFLRLPESYEIilsSAQITLKERVYNIISSSPSRQWKLTDVADHIFMSTSTLK---RKLAEEgtSFSDIYLSA 257
|
90 100 110 120
....*....|....*....|....*....|....*....|....*.
gi 488976599 243 QLREAKRLLLFSDSAVNEIAWQLGFKDPAYFARFFSRQVGCSPSSY 288
Cdd:PRK15185 258 RMNQAAKLLRIGNHNVNAVALKCGYDSTSYFIQCFKKYFKTTPSTF 303
|
|
| AraC_binding |
pfam02311 |
AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization ... |
43-167 |
1.63e-04 |
|
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: 40.88 E-value: 1.63e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 43 HRHDrYFQMHYLDTGQIELQLDDHRYSVQAPLFVITPPSVPHAFITESDSD--GHVLTVHEELIWPLLevlypgtRETFG 120
Cdd:pfam02311 19 HVHD-FYVIGYIERGVGRFRLNGRTYHLGPGDLFLLPPGEPHDYEPESEDGwrYRWLYFEPELLERIL-------ADISI 90
|
90 100 110 120
....*....|....*....|....*....|....*....|....*..
gi 488976599 121 LPGICLSLADkPDELAALAhyWQLIRRESTAQLPGREHTLALLAQAV 167
Cdd:pfam02311 91 LAGGPLPLLR-DPELAALL--RALFRLLEEAGRSDDLLAEALLYQLL 134
|
|
| HTH_AraC |
pfam00165 |
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ... |
254-289 |
6.61e-04 |
|
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: 36.75 E-value: 6.61e-04
10 20 30
....*....|....*....|....*....|....*.
gi 488976599 254 SDSAVNEIAWQLGFkDPAYFARFFSRQVGCSPSSYR 289
Cdd:pfam00165 7 TNLTIADIADELGF-SRSYFSRLFKKYTGVTPSQYR 41
|
|
| PRK09940 |
PRK09940 |
transcriptional regulator YdeO; Provisional |
187-291 |
2.08e-03 |
|
transcriptional regulator YdeO; Provisional
Pssm-ID: 182157 [Multi-domain] Cd Length: 253 Bit Score: 38.91 E-value: 2.08e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 187 GELKLFQRFNQMIDSHYHQHWTVPDYARELHLTESRLTDICRRfANRSPKRLIFDRQLREAKRLLLFSDSaVNEIAWQLG 266
Cdd:PRK09940 131 GVLSVSGKVRNIVNMKLAHPWKLKDICDCLYISESLLKKKLKQ-EQTTFSQILLDARMQHAKNLIRVEGS-VNKIAEQCG 208
|
90 100
....*....|....*....|....*....
gi 488976599 267 FKDPAYFARFFSRQVGCSP----SSYRAQ 291
Cdd:PRK09940 209 YASTSYFIYAFRKHFGNSPkrvsKEYRCQ 237
|
|
| PRK10219 |
PRK10219 |
superoxide response transcriptional regulator SoxS; |
191-291 |
2.75e-03 |
|
superoxide response transcriptional regulator SoxS;
Pssm-ID: 182314 [Multi-domain] Cd Length: 107 Bit Score: 36.83 E-value: 2.75e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 191 LFQRFNQMIDSHYHQHWTVPDYARELHLTESRLTDICRRFANRSPKRLIFDRQLREAKRLLLFSDSAVNEIAWQLGFKDP 270
Cdd:PRK10219 6 IIQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQ 85
|
90 100
....*....|....*....|.
gi 488976599 271 AYFARFFSRQVGCSPSSYRAQ 291
Cdd:PRK10219 86 QTFSRVFRRQFDRTPSDYRHR 106
|
|
| PRK09978 |
PRK09978 |
DNA-binding transcriptional regulator GadX; Provisional |
194-294 |
4.99e-03 |
|
DNA-binding transcriptional regulator GadX; Provisional
Pssm-ID: 137624 [Multi-domain] Cd Length: 274 Bit Score: 37.98 E-value: 4.99e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488976599 194 RFNQMIDSHYHQHWTVPDYARELHLTESRLTDICRRfANRSPKRLIFDRQLREAKRLLLFSDSAVNEIAWQLGFKDPAYF 273
Cdd:PRK09978 146 RVCTVINNNIAHEWTLARIASELLMSPSLLKKKLRE-EETSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVSYF 224
|
90 100
....*....|....*....|....
gi 488976599 274 ARFFSRQVGCSPSSY---RAQKVP 294
Cdd:PRK09978 225 IYVFRNYYGMTPTEYqerSAQGLP 248
|
|
| PRK13500 |
PRK13500 |
HTH-type transcriptional activator RhaR; |
242-289 |
8.14e-03 |
|
HTH-type transcriptional activator RhaR;
Pssm-ID: 184091 [Multi-domain] Cd Length: 312 Bit Score: 37.39 E-value: 8.14e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|
gi 488976599 242 RQLR--EAKRLLLFSDSAVNEIAWQLGFKDPAYFARFFSRQVGCSPSSYR 289
Cdd:PRK13500 256 RQVRvcHAQYLLQHSRLLISDISTECGFEDSNYFSVVFTRETGMTPSQWR 305
|
|
| |
