|
Name |
Accession |
Description |
Interval |
E-value |
| PRK11074 |
PRK11074 |
putative DNA-binding transcriptional regulator; Provisional |
1-299 |
0e+00 |
|
putative DNA-binding transcriptional regulator; Provisional
Pssm-ID: 182948 [Multi-domain] Cd Length: 300 Bit Score: 566.88 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 1 MFSKSSLEMLDTVARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRLPRKVELTPAGELFIEEARALLRQMEEVS 80
Cdd:PRK11074 1 MWSEYSLEVVDAVARTGSFSAAAQELHRVPSAVSYTVRQLEEWLAVPLFERRHRDVELTPAGEWFVKEARSVIKKMQETR 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 81 AQTRRAARGWKKTLRLTLDNVVKLDKMKPMIEEFYQTFEFAELQINMEVFNGSWEAIAQGRADIVIGATSAIPVGGDFEV 160
Cdd:PRK11074 81 RQCQQVANGWRGQLSIAVDNIVRPDRTRQLIVDFYRHFDDVELIIRQEVFNGVWDALADGRVDIAIGATRAIPVGGRFAF 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 161 KDMGRLDWAFVMSPSHP-CVREQNLNEEFVSQYPAICLDDTSSVLPKRHTGHYSNQRRLLLPNWYSAIECLKNGVGVGYM 239
Cdd:PRK11074 161 RDMGMLSWACVVSSDHPlASMDGPLSDDELRPYPSLCLEDTSRTLPKRITWLLDNQRRLVVPDWESAINCLSAGLCVGMV 240
|
250 260 270 280 290 300
....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 240 PRHIAAPIIEQGLLVEKILPEPSPQSHCCLVWRKDDNHKLIEWMVKYLGSSEQLHQDWLD 299
Cdd:PRK11074 241 PTHFAKPLINSGKLVELTLENPFPDSPCCLTWQQNDMSPALAWLLDYLGDSETLNKEWLR 300
|
|
| PBP2_HupR |
cd08431 |
The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which ... |
93-287 |
4.47e-54 |
|
The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which regulates expression of the heme uptake receptor HupA; contains the type 2 periplasmic binding fold; HupR, a member of the LysR family, activates hupA transcription under low-iron conditions in the presence of hemin. The expression of many iron-uptake genes, such as hupA, is regulated at the transcriptional level by iron and an iron-binding repressor protein called Fur (ferric uptake regulation). Under iron-abundant conditions with heme, the active Fur repressor protein represses transcription of the iron-uptake gene hupA, and prevents transcriptional activation via HupR. Under low-iron conditions with heme, the Fur repressor is inactive and transcription of the hupA is allowed. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.
Pssm-ID: 176122 [Multi-domain] Cd Length: 195 Bit Score: 174.76 E-value: 4.47e-54
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 93 TLRLTLDNVVKLDKMKPMIEEFYQTFEFAELQINMEVFNGSWEAIAQGRADIVIGATsAIPVGGDFEVKDMGRLDWAFVM 172
Cdd:cd08431 1 ELRIAIDTVLPLQPLYPLIAEFYQLNKATRIRLSEEVLGGTWDALASGRADLVIGAT-GELPPGGVKTRPLGEVEFVFAV 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 173 SPSHP-CVREQNLNEEFVSQYPAICLDDTSSVLPKRHTGHYSNQRRLLLPNWYSAIECLKNGVGVGYMPRHIAAPIIEQG 251
Cdd:cd08431 80 APNHPlAKLDGPLDASAIKQYPAIVVADTSRNLPPRSSGLLEGQDRIRVPTMQAKIDAQVLGLGVGYLPRHLAKPELASG 159
|
170 180 190
....*....|....*....|....*....|....*.
gi 857787081 252 LLVEKILPEPSPQSHCCLVWRKDDNHKLIEWMVKYL 287
Cdd:cd08431 160 ELVEKALEDPRPPQELFLAWRKDQRGKALAWFVQRL 195
|
|
| LysR |
COG0583 |
DNA-binding transcriptional regulator, LysR family [Transcription]; |
7-287 |
1.61e-49 |
|
DNA-binding transcriptional regulator, LysR family [Transcription];
Pssm-ID: 440348 [Multi-domain] Cd Length: 256 Bit Score: 165.04 E-value: 1.61e-49
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 7 LEMLDTVARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRLPRKVELTPAGELFIEEARALLRQMEEVSAQTRRA 86
Cdd:COG0583 6 LRAFVAVAEEGSFTAAAERLGVSQPAVSRQIRRLEEELGVPLFERTGRGLRLTEAGERLLERARRILAELEEAEAELRAL 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 87 ARGWKKTLRLTLDNVVKLDKMKPMIEEFYQTFEFAELQINMEVFNGSWEAIAQGRADIVIGATSaiPVGGDFEVKDMGRL 166
Cdd:COG0583 86 RGGPRGTLRIGAPPSLARYLLPPLLARFRARHPGVRLELREGNSDRLVDALLEGELDLAIRLGP--PPDPGLVARPLGEE 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 167 DWAFVMSPSHPCVReqnlneefvsqypaiclddtssvlpkrhtghysnqRRLLLPNWYSAIECLKNGVGVGYMPRHIAAP 246
Cdd:COG0583 164 RLVLVASPDHPLAR-----------------------------------RAPLVNSLEALLAAVAAGLGIALLPRFLAAD 208
|
250 260 270 280
....*....|....*....|....*....|....*....|..
gi 857787081 247 IIEQGLLVEKILPEPSPQSHCCLVWRKD-DNHKLIEWMVKYL 287
Cdd:COG0583 209 ELAAGRLVALPLPDPPPPRPLYLVWRRRrHLSPAVRAFLDFL 250
|
|
| LysR_substrate |
pfam03466 |
LysR substrate binding domain; The structure of this domain is known and is similar to the ... |
93-287 |
9.26e-21 |
|
LysR substrate binding domain; The structure of this domain is known and is similar to the periplasmic binding proteins. This domain binds a variety of ligands that caries in size and structure, such as amino acids, sugar phosphates, organic acids, metal cations, flavonoids, C6-ring carboxylic acids, H2O2, HOCl, homocysteine, NADPH, ATP, sulphate, muropeptides, acetate, salicylate, citrate, phenol- and quinolone derivatives, acetylserines, fatty acid CoA, shikimate, chorismate, homocysteine, indole-3-acetic acid, Na(I), c-di-GMP, ppGpp and hydrogen peroxide (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).
Pssm-ID: 460931 [Multi-domain] Cd Length: 205 Bit Score: 88.11 E-value: 9.26e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 93 TLRLTLDNVVKLDKMKPMIEEFYQTFEFAELQINMEVFNGSWEAIAQGRADIVIGATSaiPVGGDFEVKDMGRLDWAFVM 172
Cdd:pfam03466 3 RLRIGAPPTLASYLLPPLLARFRERYPDVELELTEGNSEELLDLLLEGELDLAIRRGP--PDDPGLEARPLGEEPLVLVA 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 173 SPSHPCVREQNLNEEFVSQYPAICLDDTSS----VLPKRHTGHYSNQRRLLLPNWYSAIECLKNGVGVGYMPRHIAAPII 248
Cdd:pfam03466 81 PPDHPLARGEPVSLEDLADEPLILLPPGSGlrdlLDRALRAAGLRPRVVLEVNSLEALLQLVAAGLGIALLPRSAVAREL 160
|
170 180 190 200
....*....|....*....|....*....|....*....|
gi 857787081 249 EQGLLVEKILPEPSPQSHCCLVWRKDD-NHKLIEWMVKYL 287
Cdd:pfam03466 161 ADGRLVALPLPEPPLPRELYLVWRKGRpLSPAVRAFIEFL 200
|
|
| argP |
TIGR03298 |
transcriptional regulator, ArgP family; ArgP used to be known as IciA. ArgP is a positive ... |
7-260 |
1.12e-08 |
|
transcriptional regulator, ArgP family; ArgP used to be known as IciA. ArgP is a positive regulator of argK. It is a negative autoregulator in presence of arginine. It competes with DnaA for oriC iteron (13-mer) binding. It activates dnaA and nrd transcription. It has been demonstrated to be part of the pho regulon (). ArgP mutants convey canavanine (an L-arginine structural homolog) sensitivity. [Cellular processes, Toxin production and resistance, DNA metabolism, DNA replication, recombination, and repair, Regulatory functions, DNA interactions]
Pssm-ID: 274509 [Multi-domain] Cd Length: 292 Bit Score: 55.31 E-value: 1.12e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 7 LEMLDTVARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRlPRKVELTPAGELFIEEARAlLRQME-EVSAQTRR 85
Cdd:TIGR03298 6 LAALAAVVEEGSFERAAAALSVTPSAVSQRIKALEERLGQPLLVR-TQPCRATEAGQRLLRHARQ-VRLLEaELLAELPG 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 86 AARGWKKTLRLTL--DNVVK--LDKMKPMIEEfyqtfEFAELQINMEVFNGSWEAIAQGRadiVIGA--TSAIPVGGDFE 159
Cdd:TIGR03298 84 LAPGAPTRLTIAVnaDSLATwfLPALAPVLAR-----EGVLLDLVVEDQDHTAELLRSGE---VLGAvtTEAKPVPGCRV 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 160 VKdMGRLDWAFVMSPS-----HPcvreQNLNEEFVSQYPAIC---LDDTSSVLPKRHTGHYSNQRRLLLPNWYSAIECLK 231
Cdd:TIGR03298 156 VP-LGAMRYLAVASPAfaaryFP----DGVTAAALARAPVIVfnrKDDLQDRFLRRLFGLPVSPPRHYVPSSEGFVDAAR 230
|
250 260
....*....|....*....|....*....
gi 857787081 232 NGVGVGYMPRHIAAPIIEQGLLVEkILPE 260
Cdd:TIGR03298 231 AGLGWGMVPELQAEPHLAAGRLVE-LAPG 258
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| PRK11074 |
PRK11074 |
putative DNA-binding transcriptional regulator; Provisional |
1-299 |
0e+00 |
|
putative DNA-binding transcriptional regulator; Provisional
Pssm-ID: 182948 [Multi-domain] Cd Length: 300 Bit Score: 566.88 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 1 MFSKSSLEMLDTVARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRLPRKVELTPAGELFIEEARALLRQMEEVS 80
Cdd:PRK11074 1 MWSEYSLEVVDAVARTGSFSAAAQELHRVPSAVSYTVRQLEEWLAVPLFERRHRDVELTPAGEWFVKEARSVIKKMQETR 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 81 AQTRRAARGWKKTLRLTLDNVVKLDKMKPMIEEFYQTFEFAELQINMEVFNGSWEAIAQGRADIVIGATSAIPVGGDFEV 160
Cdd:PRK11074 81 RQCQQVANGWRGQLSIAVDNIVRPDRTRQLIVDFYRHFDDVELIIRQEVFNGVWDALADGRVDIAIGATRAIPVGGRFAF 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 161 KDMGRLDWAFVMSPSHP-CVREQNLNEEFVSQYPAICLDDTSSVLPKRHTGHYSNQRRLLLPNWYSAIECLKNGVGVGYM 239
Cdd:PRK11074 161 RDMGMLSWACVVSSDHPlASMDGPLSDDELRPYPSLCLEDTSRTLPKRITWLLDNQRRLVVPDWESAINCLSAGLCVGMV 240
|
250 260 270 280 290 300
....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 240 PRHIAAPIIEQGLLVEKILPEPSPQSHCCLVWRKDDNHKLIEWMVKYLGSSEQLHQDWLD 299
Cdd:PRK11074 241 PTHFAKPLINSGKLVELTLENPFPDSPCCLTWQQNDMSPALAWLLDYLGDSETLNKEWLR 300
|
|
| PRK10094 |
PRK10094 |
HTH-type transcriptional activator AllS; |
1-299 |
5.51e-58 |
|
HTH-type transcriptional activator AllS;
Pssm-ID: 182237 [Multi-domain] Cd Length: 308 Bit Score: 188.48 E-value: 5.51e-58
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 1 MFSKSSLEMLDTVARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRLPRKVELTPAGELFIEEARALLRQMEEVS 80
Cdd:PRK10094 1 MFDPETLRTFIAVAETGSFSKAAERLCKTTATISYRIKLLEENTGVALFFRTTRSVTLTAAGEHLLSQARDWLSWLESMP 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 81 AQTRRAARGWKKTLRLTLDNVV-KLDKMKPMIEEFYQTFEFAELQINMEVFNGSWEAIAQGRADIVIGATSAIPVGGDFE 159
Cdd:PRK10094 81 SELQQVNDGVERQVNIVINNLLyNPQAVAQLLAWLNERYPFTQFHISRQIYMGVWDSLLYEGFSLAIGVTGTEALANTFS 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 160 VKDMGRLDWAFVMSPSHPCVR-EQNLNEEFVSQYPAICLDDTSSVLPKRHTGHYSNQRRLLLPNWYSAIECLKNGVGVGY 238
Cdd:PRK10094 161 LDPLGSVQWRFVMAADHPLANvEEPLTEAQLRRFPAVNIEDSARTLTKRVAWRLPGQKEIIVPDMETKIAAHLAGVGIGF 240
|
250 260 270 280 290 300
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 857787081 239 MPRHIAAPIIEQGLLVEKILPEPSPQSHCCLVWRKDDNHKLIEWMVKYLGSSEQLHQDWLD 299
Cdd:PRK10094 241 LPKSLCQSMIDNQQLVSRVIPTMRPPSPLSLAWRKFGSGKAVEDIVTLFTQRRPEISGFLE 301
|
|
| PBP2_HupR |
cd08431 |
The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which ... |
93-287 |
4.47e-54 |
|
The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which regulates expression of the heme uptake receptor HupA; contains the type 2 periplasmic binding fold; HupR, a member of the LysR family, activates hupA transcription under low-iron conditions in the presence of hemin. The expression of many iron-uptake genes, such as hupA, is regulated at the transcriptional level by iron and an iron-binding repressor protein called Fur (ferric uptake regulation). Under iron-abundant conditions with heme, the active Fur repressor protein represses transcription of the iron-uptake gene hupA, and prevents transcriptional activation via HupR. Under low-iron conditions with heme, the Fur repressor is inactive and transcription of the hupA is allowed. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.
Pssm-ID: 176122 [Multi-domain] Cd Length: 195 Bit Score: 174.76 E-value: 4.47e-54
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 93 TLRLTLDNVVKLDKMKPMIEEFYQTFEFAELQINMEVFNGSWEAIAQGRADIVIGATsAIPVGGDFEVKDMGRLDWAFVM 172
Cdd:cd08431 1 ELRIAIDTVLPLQPLYPLIAEFYQLNKATRIRLSEEVLGGTWDALASGRADLVIGAT-GELPPGGVKTRPLGEVEFVFAV 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 173 SPSHP-CVREQNLNEEFVSQYPAICLDDTSSVLPKRHTGHYSNQRRLLLPNWYSAIECLKNGVGVGYMPRHIAAPIIEQG 251
Cdd:cd08431 80 APNHPlAKLDGPLDASAIKQYPAIVVADTSRNLPPRSSGLLEGQDRIRVPTMQAKIDAQVLGLGVGYLPRHLAKPELASG 159
|
170 180 190
....*....|....*....|....*....|....*.
gi 857787081 252 LLVEKILPEPSPQSHCCLVWRKDDNHKLIEWMVKYL 287
Cdd:cd08431 160 ELVEKALEDPRPPQELFLAWRKDQRGKALAWFVQRL 195
|
|
| LysR |
COG0583 |
DNA-binding transcriptional regulator, LysR family [Transcription]; |
7-287 |
1.61e-49 |
|
DNA-binding transcriptional regulator, LysR family [Transcription];
Pssm-ID: 440348 [Multi-domain] Cd Length: 256 Bit Score: 165.04 E-value: 1.61e-49
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 7 LEMLDTVARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRLPRKVELTPAGELFIEEARALLRQMEEVSAQTRRA 86
Cdd:COG0583 6 LRAFVAVAEEGSFTAAAERLGVSQPAVSRQIRRLEEELGVPLFERTGRGLRLTEAGERLLERARRILAELEEAEAELRAL 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 87 ARGWKKTLRLTLDNVVKLDKMKPMIEEFYQTFEFAELQINMEVFNGSWEAIAQGRADIVIGATSaiPVGGDFEVKDMGRL 166
Cdd:COG0583 86 RGGPRGTLRIGAPPSLARYLLPPLLARFRARHPGVRLELREGNSDRLVDALLEGELDLAIRLGP--PPDPGLVARPLGEE 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 167 DWAFVMSPSHPCVReqnlneefvsqypaiclddtssvlpkrhtghysnqRRLLLPNWYSAIECLKNGVGVGYMPRHIAAP 246
Cdd:COG0583 164 RLVLVASPDHPLAR-----------------------------------RAPLVNSLEALLAAVAAGLGIALLPRFLAAD 208
|
250 260 270 280
....*....|....*....|....*....|....*....|..
gi 857787081 247 IIEQGLLVEKILPEPSPQSHCCLVWRKD-DNHKLIEWMVKYL 287
Cdd:COG0583 209 ELAAGRLVALPLPDPPPPRPLYLVWRRRrHLSPAVRAFLDFL 250
|
|
| LysR_substrate |
pfam03466 |
LysR substrate binding domain; The structure of this domain is known and is similar to the ... |
93-287 |
9.26e-21 |
|
LysR substrate binding domain; The structure of this domain is known and is similar to the periplasmic binding proteins. This domain binds a variety of ligands that caries in size and structure, such as amino acids, sugar phosphates, organic acids, metal cations, flavonoids, C6-ring carboxylic acids, H2O2, HOCl, homocysteine, NADPH, ATP, sulphate, muropeptides, acetate, salicylate, citrate, phenol- and quinolone derivatives, acetylserines, fatty acid CoA, shikimate, chorismate, homocysteine, indole-3-acetic acid, Na(I), c-di-GMP, ppGpp and hydrogen peroxide (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).
Pssm-ID: 460931 [Multi-domain] Cd Length: 205 Bit Score: 88.11 E-value: 9.26e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 93 TLRLTLDNVVKLDKMKPMIEEFYQTFEFAELQINMEVFNGSWEAIAQGRADIVIGATSaiPVGGDFEVKDMGRLDWAFVM 172
Cdd:pfam03466 3 RLRIGAPPTLASYLLPPLLARFRERYPDVELELTEGNSEELLDLLLEGELDLAIRRGP--PDDPGLEARPLGEEPLVLVA 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 173 SPSHPCVREQNLNEEFVSQYPAICLDDTSS----VLPKRHTGHYSNQRRLLLPNWYSAIECLKNGVGVGYMPRHIAAPII 248
Cdd:pfam03466 81 PPDHPLARGEPVSLEDLADEPLILLPPGSGlrdlLDRALRAAGLRPRVVLEVNSLEALLQLVAAGLGIALLPRSAVAREL 160
|
170 180 190 200
....*....|....*....|....*....|....*....|
gi 857787081 249 EQGLLVEKILPEPSPQSHCCLVWRKDD-NHKLIEWMVKYL 287
Cdd:pfam03466 161 ADGRLVALPLPEPPLPRELYLVWRKGRpLSPAVRAFIEFL 200
|
|
| HTH_1 |
pfam00126 |
Bacterial regulatory helix-turn-helix protein, lysR family; |
7-63 |
1.87e-19 |
|
Bacterial regulatory helix-turn-helix protein, lysR family;
Pssm-ID: 459683 [Multi-domain] Cd Length: 60 Bit Score: 80.12 E-value: 1.87e-19
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*..
gi 857787081 7 LEMLDTVARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRLPRKVELTPAGE 63
Cdd:pfam00126 4 LRLFVAVAETGSFTAAAERLGLSQPAVSRQIKRLEEELGVPLFERTTRGVRLTEAGE 60
|
|
| PRK15421 |
PRK15421 |
HTH-type transcriptional regulator MetR; |
1-260 |
9.10e-14 |
|
HTH-type transcriptional regulator MetR;
Pssm-ID: 185319 [Multi-domain] Cd Length: 317 Bit Score: 70.43 E-value: 9.10e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 1 MFSKSSLEMLDTVARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRLPRKVELTPAGELFIEEARALLRQMeevs 80
Cdd:PRK15421 1 MIEVKHLKTLQALRNCGSLAAAAATLHQTQSALSHQFSDLEQRLGFRLFVRKSQPLRFTPQGEILLQLANQVLPQI---- 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 81 AQTRRAARGWKKT-LRLTLDNVVKLDKMKPMIEEFYQTFEFAELQINMEVFNGSWEAIAQGRADIVIgaTSAI-PVGG-- 156
Cdd:PRK15421 77 SQALQACNEPQQTrLRIAIECHSCIQWLTPALENFHKNWPQVEMDFKSGVTFDPQPALQQGELDLVM--TSDIlPRSGlh 154
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 157 -----DFEVKdmgrldwaFVMSPSHPC-----VREQNLNEEFVSQYPAicldDTSSVLPKRHTGHYSNQRRLL--LPNWY 224
Cdd:PRK15421 155 yspmfDYEVR--------LVLAPDHPLaaktrITPEDLASETLLIYPV----QRSRLDVWRHFLQPAGVSPSLksVDNTL 222
|
250 260 270
....*....|....*....|....*....|....*.
gi 857787081 225 SAIECLKNGVGVGYMPRHIAAPIIEQGLLVEKILPE 260
Cdd:PRK15421 223 LLIQMVAARMGIAALPHWVVESFERQGLVVTKTLGE 258
|
|
| PRK11139 |
PRK11139 |
DNA-binding transcriptional activator GcvA; Provisional |
6-98 |
9.64e-14 |
|
DNA-binding transcriptional activator GcvA; Provisional
Pssm-ID: 182990 [Multi-domain] Cd Length: 297 Bit Score: 70.26 E-value: 9.64e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 6 SLEMLDTVARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRLPRKVELTPAGELFIEEARALLRQMEEVSAQTRr 85
Cdd:PRK11139 10 ALRAFEAAARHLSFTRAAEELFVTQAAVSHQIKALEDFLGLKLFRRRNRSLLLTEEGQRYFLDIREIFDQLAEATRKLR- 88
|
90
....*....|...
gi 857787081 86 aARGWKKTLRLTL 98
Cdd:PRK11139 89 -ARSAKGALTVSL 100
|
|
| PRK10086 |
PRK10086 |
DNA-binding transcriptional regulator DsdC; |
5-63 |
1.37e-13 |
|
DNA-binding transcriptional regulator DsdC;
Pssm-ID: 182231 [Multi-domain] Cd Length: 311 Bit Score: 70.03 E-value: 1.37e-13
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*....
gi 857787081 5 SSLEMLDTVARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRLPRKVELTPAGE 63
Cdd:PRK10086 17 SKLHTFEVAARHQSFALAADELSLTPSAVSHRINQLEEELGIKLFVRSHRKVELTEEGK 75
|
|
| rbcR |
CHL00180 |
LysR transcriptional regulator; Provisional |
2-203 |
3.16e-13 |
|
LysR transcriptional regulator; Provisional
Pssm-ID: 177082 [Multi-domain] Cd Length: 305 Bit Score: 68.89 E-value: 3.16e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 2 FSKSSLEMLDTVARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRLPRKVELTPAGELFIEEARALLRQMEEvsa 81
Cdd:CHL00180 5 FTLDQLRILKAIATEGSFKKAAESLYISQPAVSLQIKNLEKQLNIPLFDRSKNKASLTEAGELLLRYGNRILALCEE--- 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 82 qTRRAARGWKKTLRLTLdnVVKLDK------MKPMIEEFYQTFEFAELQINMEVFNG-SWeAIAQGRADIVIgatsaipV 154
Cdd:CHL00180 82 -TCRALEDLKNLQRGTL--IIGASQttgtylMPRLIGLFRQRYPQINVQLQVHSTRRiAW-NVANGQIDIAI-------V 150
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*..
gi 857787081 155 GGD--------FEVKDMGRLDWAFVMSPSHPCVREQNLNEEFVSQYPAICLDDTSSV 203
Cdd:CHL00180 151 GGEvptelkkiLEITPYVEDELALIIPKSHPFAKLKKIQKEDLYRLNFITLDSNSTI 207
|
|
| PRK11242 |
PRK11242 |
DNA-binding transcriptional regulator CynR; Provisional |
13-274 |
4.28e-13 |
|
DNA-binding transcriptional regulator CynR; Provisional
Pssm-ID: 183051 [Multi-domain] Cd Length: 296 Bit Score: 68.44 E-value: 4.28e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 13 VARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRLPRKVELTPAGELFIEEARALLRQMEEvsaqTRRA------ 86
Cdd:PRK11242 12 VAEHGNFTRAAEALHVSQPTLSQQIRQLEESLGVQLFDRSGRTVRLTDAGEVYLRYARRALQDLEA----GRRAihdvad 87
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 87 -ARGwkkTLRLTLDNVVKLDKMKPMIEEFYQ-----TFEFAEL-QINMEvfngswEAIAQGRADIVIGATSAIPVGGDFE 159
Cdd:PRK11242 88 lSRG---SLRLAMTPTFTAYLIGPLIDAFHArypgiTLTIREMsQERIE------ALLADDELDVGIAFAPVHSPEIEAQ 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 160 VKDMGRLdwAFVMSPSHPCVREQN-LNEEFVSQYPAICLddTSSVLPKRHTGHYSNQRRL-----LLPNWYSAI-ECLKN 232
Cdd:PRK11242 159 PLFTETL--ALVVGRHHPLAARRKaLTLDELADEPLVLL--SAEFATREQIDRYFRRHGVtprvaIEANSISAVlEIVRR 234
|
250 260 270 280
....*....|....*....|....*....|....*....|..
gi 857787081 233 GVGVGYMPRHIAApiiEQGLLVEKILPEPSPQSHCCLVWRKD 274
Cdd:PRK11242 235 GRLATLLPAAIAR---EHDGLCAIPLDPPLPQRTAALLRRKG 273
|
|
| PRK10341 |
PRK10341 |
transcriptional regulator TdcA; |
6-214 |
2.58e-12 |
|
transcriptional regulator TdcA;
Pssm-ID: 182391 [Multi-domain] Cd Length: 312 Bit Score: 66.04 E-value: 2.58e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 6 SLEMLDTVARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRLPRKVELTPAGELFIEEARALLRQMEEVSAQTRR 85
Cdd:PRK10341 11 HLVVFQEVIRSGSIGSAAKELGLTQPAVSKIINDIEDYFGVELIVRKNTGVTLTPAGQVLLSRSESITREMKNMVNEING 90
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 86 AARGWKKTLRLTLDNVVKLDKMKPMIEEFYQTFEFAELQINMEVFNGSWEAIAQGRADIVIGATSAIPVGGDFEVKDMGR 165
Cdd:PRK10341 91 MSSEAVVDVSFGFPSLIGFTFMSDMINKFKEVFPKAQVSMYEAQLSSFLPAIRDGRLDFAIGTLSNEMKLQDLHVEPLFE 170
|
170 180 190 200
....*....|....*....|....*....|....*....|....*....
gi 857787081 166 LDWAFVMSPSHPCVREQNLNEefvsqypaicLDDTSSVLPKRHTGHYSN 214
Cdd:PRK10341 171 SEFVLVASKSRTCTGTTTLES----------LKNEQWVLPQTNMGYYSE 209
|
|
| PBP2_LTTR_substrate |
cd05466 |
The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the ... |
109-274 |
3.32e-12 |
|
The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; This model and hierarchy represent the the substrate-binding domain of the LysR-type transcriptional regulators that form the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse functional roles including amino acid biosynthesis, CO2 fixation, antibiotic resistance, degradation of aromatic compounds, oxidative stress responses, nodule formation of nitrogen-fixing bacteria, synthesis of virulence factors, toxin production, attachment and secretion, to name a few. The structural topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis. Besides transport proteins, the PBP2 superfamily includes the substrate-binding domains from ionotropic glutamate receptors, LysR-like transcriptional regulators, and unorthodox sensor proteins involved in signal transduction.
Pssm-ID: 176102 [Multi-domain] Cd Length: 197 Bit Score: 64.16 E-value: 3.32e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 109 PMIEEFYQTFEFAELQINMEVFNGSWEAIAQGRADIVIgaTSAIPVGGDFEVKDMGRLDWAFVMSPSHPCVREQNLNEEF 188
Cdd:cd05466 17 PLLAAFRQRYPGVELSLVEGGSSELLEALLEGELDLAI--VALPVDDPGLESEPLFEEPLVLVVPPDHPLAKRKSVTLAD 94
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 189 VSQYPAICLDDTSSVlpkRHTGHYSNQRRLLLPN-------WYSAIECLKNGVGVGYMPRHIAAPIIEQGlLVEKILPEP 261
Cdd:cd05466 95 LADEPLILFERGSGL---RRLLDRAFAEAGFTPNialevdsLEAIKALVAAGLGIALLPESAVEELADGG-LVVLPLEDP 170
|
170
....*....|...
gi 857787081 262 SPQSHCCLVWRKD 274
Cdd:cd05466 171 PLSRTIGLVWRKG 183
|
|
| PRK09906 |
PRK09906 |
DNA-binding transcriptional regulator HcaR; Provisional |
12-144 |
1.74e-11 |
|
DNA-binding transcriptional regulator HcaR; Provisional
Pssm-ID: 182137 [Multi-domain] Cd Length: 296 Bit Score: 63.64 E-value: 1.74e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 12 TVARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRLPRKVELTPAGELFIEEARALLRQMEEVSAQTRRAARGwK 91
Cdd:PRK09906 11 AVAEELNFTKAAEKLHTAQPSLSQQIKDLENCVGVPLLVRDKRKVALTAAGEVFLQDARAILEQAEKAKLRARKIVQE-D 89
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*..
gi 857787081 92 KTLRLTLdnvVKLDKMKpMIEEFYQTFEFAELQINMEVFN----GSWEAIAQGRADI 144
Cdd:PRK09906 90 RQLTIGF---VPSAEVN-LLPKVLPMFRLRHPDTLIELVSlittQQEEKLRRGELDV 142
|
|
| PRK13348 |
PRK13348 |
HTH-type transcriptional regulator ArgP; |
1-260 |
3.13e-11 |
|
HTH-type transcriptional regulator ArgP;
Pssm-ID: 237357 [Multi-domain] Cd Length: 294 Bit Score: 62.68 E-value: 3.13e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 1 MFSKSSLEMLDTVARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRlPRKVELTPAGELFIEEARAlLRQMEEVS 80
Cdd:PRK13348 1 MLDYKQLEALAAVVETGSFERAARRLHVTPSAVSQRIKALEESLGQPLLVR-GRPCRPTPAGQRLLRHLRQ-VALLEADL 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 81 AQTRRAARGWKKTLRLTLdNVVKLDK-MKPMIEEFYQTfEFAELQINMEVFNGSWEAIAQGRadiVIGA--TSAIPVGGd 157
Cdd:PRK13348 79 LSTLPAERGSPPTLAIAV-NADSLATwFLPALAAVLAG-ERILLELIVDDQDHTFALLERGE---VVGCvsTQPKPMRG- 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 158 FEVKDMGRLDWAFVMSPS-HPCVREQNLNEEFVSQYPAICL---DDTSSVLPKRH----TGHYsnqRRLLLPNWYSAIEC 229
Cdd:PRK13348 153 CLAEPLGTMRYRCVASPAfAARYFAQGLTRHSALKAPAVAFnrkDTLQDSFLEQLfglpVGAY---PRHYVPSTHAHLAA 229
|
250 260 270
....*....|....*....|....*....|.
gi 857787081 230 LKNGVGVGYMPRHIAAPIIEQGLLVEkILPE 260
Cdd:PRK13348 230 IRHGLGYGMVPELLIGPLLAAGRLVD-LAPG 259
|
|
| PRK12680 |
PRK12680 |
LysR family transcriptional regulator; |
20-150 |
6.37e-10 |
|
LysR family transcriptional regulator;
Pssm-ID: 183677 [Multi-domain] Cd Length: 327 Bit Score: 59.25 E-value: 6.37e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 20 TAAAEQLHKVPSAISYGVRQVEQELDVLLFRRLPRKVE-LTPAGELFIEEARALLRQMEEV---SAQTRRAARGwkkTLR 95
Cdd:PRK12680 20 TLAAARVHATQPGLSKQLKQLEDELGFLLFVRKGRSLEsVTPAGVEVIERARAVLSEANNIrtyAANQRRESQG---QLT 96
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*
gi 857787081 96 LTLDNVVKLDKMKPMIEEFYQTFEFAELQINMEVFNGSWEAIAQGRADIVIGATS 150
Cdd:PRK12680 97 LTTTHTQARFVLPPAVAQIKQAYPQVSVHLQQAAESAALDLLGQGDADIAIVSTA 151
|
|
| PRK10632 |
PRK10632 |
HTH-type transcriptional activator AaeR; |
13-82 |
7.46e-10 |
|
HTH-type transcriptional activator AaeR;
Pssm-ID: 182601 [Multi-domain] Cd Length: 309 Bit Score: 59.00 E-value: 7.46e-10
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 13 VARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRLPRKVELTPAGELFIEEARALLRQMEEVSAQ 82
Cdd:PRK10632 13 VVEFGSFTAAARQLQMSVSSISQTVSKLEDELQVKLLNRSTRSIGLTEAGRIYYQGCRRMLHEVQDVHEQ 82
|
|
| PRK12684 |
PRK12684 |
CysB family HTH-type transcriptional regulator; |
13-199 |
1.14e-09 |
|
CysB family HTH-type transcriptional regulator;
Pssm-ID: 237173 [Multi-domain] Cd Length: 313 Bit Score: 58.45 E-value: 1.14e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 13 VARLG-SFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRL-PRKVELTPAGELFIEEARALLRQME---EVSAQTRRAA 87
Cdd:PRK12684 12 AVRQNfNLTEAAKALYTSQPGVSKAIIELEDELGVEIFTRHgKRLRGLTEPGRIILASVERILQEVEnlkRVGKEFAAQD 91
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 88 RGwkkTLRLTLDNVVKLDKMKPMIEEFYQTFEfaelQINMEVFNGSWEAIAQ----GRADIVIgATSAIPvggdfEVKDM 163
Cdd:PRK12684 92 QG---NLTIATTHTQARYALPAAIKEFKKRYP----KVRLSILQGSPTQIAEmvlhGQADLAI-ATEAIA-----DYKEL 158
|
170 180 190 200
....*....|....*....|....*....|....*....|.
gi 857787081 164 GRL---DW--AFVMSPSHPCVREQNLNEEFVSQYPAICLDD 199
Cdd:PRK12684 159 VSLpcyQWnhCVVVPPDHPLLERKPLTLEDLAQYPLITYDF 199
|
|
| argP |
TIGR03298 |
transcriptional regulator, ArgP family; ArgP used to be known as IciA. ArgP is a positive ... |
7-260 |
1.12e-08 |
|
transcriptional regulator, ArgP family; ArgP used to be known as IciA. ArgP is a positive regulator of argK. It is a negative autoregulator in presence of arginine. It competes with DnaA for oriC iteron (13-mer) binding. It activates dnaA and nrd transcription. It has been demonstrated to be part of the pho regulon (). ArgP mutants convey canavanine (an L-arginine structural homolog) sensitivity. [Cellular processes, Toxin production and resistance, DNA metabolism, DNA replication, recombination, and repair, Regulatory functions, DNA interactions]
Pssm-ID: 274509 [Multi-domain] Cd Length: 292 Bit Score: 55.31 E-value: 1.12e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 7 LEMLDTVARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRlPRKVELTPAGELFIEEARAlLRQME-EVSAQTRR 85
Cdd:TIGR03298 6 LAALAAVVEEGSFERAAAALSVTPSAVSQRIKALEERLGQPLLVR-TQPCRATEAGQRLLRHARQ-VRLLEaELLAELPG 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 86 AARGWKKTLRLTL--DNVVK--LDKMKPMIEEfyqtfEFAELQINMEVFNGSWEAIAQGRadiVIGA--TSAIPVGGDFE 159
Cdd:TIGR03298 84 LAPGAPTRLTIAVnaDSLATwfLPALAPVLAR-----EGVLLDLVVEDQDHTAELLRSGE---VLGAvtTEAKPVPGCRV 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 160 VKdMGRLDWAFVMSPS-----HPcvreQNLNEEFVSQYPAIC---LDDTSSVLPKRHTGHYSNQRRLLLPNWYSAIECLK 231
Cdd:TIGR03298 156 VP-LGAMRYLAVASPAfaaryFP----DGVTAAALARAPVIVfnrKDDLQDRFLRRLFGLPVSPPRHYVPSSEGFVDAAR 230
|
250 260
....*....|....*....|....*....
gi 857787081 232 NGVGVGYMPRHIAAPIIEQGLLVEkILPE 260
Cdd:TIGR03298 231 AGLGWGMVPELQAEPHLAAGRLVE-LAPG 258
|
|
| PRK09986 |
PRK09986 |
LysR family transcriptional regulator; |
3-190 |
1.13e-08 |
|
LysR family transcriptional regulator;
Pssm-ID: 182183 [Multi-domain] Cd Length: 294 Bit Score: 55.11 E-value: 1.13e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 3 SKSSLEMLD---TVARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRLPRKVELTPAGELFIEEARALLRQMEEV 79
Cdd:PRK09986 5 YRIDLKLLRyflAVAEELHFGRAAARLNISQPPLSIHIKELEDQLGTPLFIRHSRSVVLTHAGKILMEESRRLLDNAEQS 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 80 SAQTRRAARGWKKTLRLTLDNVVKLDKMKPMIEEFYQ-----TFEFAELQINMEVfngswEAIAQGRADIVIGATSAIPV 154
Cdd:PRK09986 85 LARVEQIGRGEAGRIEIGIVGTALWGRLRPAMRHFLKenpnvEWLLRELSPSMQM-----AALERRELDAGIWRMADLEP 159
|
170 180 190 200
....*....|....*....|....*....|....*....|..
gi 857787081 155 GGDFEVKDMGRLDWAFVMSPSHPCVREQNL------NEEFVS 190
Cdd:PRK09986 160 NPGFTSRRLHESAFAVAVPEEHPLASRSSVplkalrNEYFIT 201
|
|
| PRK10837 |
PRK10837 |
putative DNA-binding transcriptional regulator; Provisional |
7-261 |
1.30e-08 |
|
putative DNA-binding transcriptional regulator; Provisional
Pssm-ID: 182768 [Multi-domain] Cd Length: 290 Bit Score: 55.08 E-value: 1.30e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 7 LEMLDTVARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRLPRKVELTPAGELFIEEARALLRQMEEVSaQTRRA 86
Cdd:PRK10837 8 LEVFAEVLKSGSTTQASVMLALSQSAVSAALTDLEGQLGVQLFDRVGKRLVVNEHGRLLYPRALALLEQAVEIE-QLFRE 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 87 ARGwkkTLRL----TLDNVVkldkMKPMIEEFYQtfEFAELQINMEVFNGS--WEAIAQGRADI-VIGATSAIPvggdfE 159
Cdd:PRK10837 87 DNG---ALRIyassTIGNYI----LPAMIARYRR--DYPQLPLELSVGNSQdvINAVLDFRVDIgLIEGPCHSP-----E 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 160 VKDMGRLDWAFVM--SPSHPCVREQNLNEEfvsqypaicLDDTSSVLPKRHTGHYSNQRRLL---LPNWYSAIE------ 228
Cdd:PRK10837 153 LISEPWLEDELVVfaAPDSPLARGPVTLEQ---------LAAAPWILRERGSGTREIVDYLLlshLPRFELAMElgnsea 223
|
250 260 270
....*....|....*....|....*....|....*.
gi 857787081 229 ---CLKNGVGVGYMPRHIAAPIIEQGLLVEKILPEP 261
Cdd:PRK10837 224 ikhAVRHGLGISCLSRRVIADQLQAGTLVEVAVPLP 259
|
|
| PRK03635 |
PRK03635 |
ArgP/LysG family DNA-binding transcriptional regulator; |
1-79 |
2.62e-08 |
|
ArgP/LysG family DNA-binding transcriptional regulator;
Pssm-ID: 235144 [Multi-domain] Cd Length: 294 Bit Score: 54.01 E-value: 2.62e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 1 MFSKSSLEMLDTVARLGSFTAAAEQLHKVPSAISYGVRQVEQEL-DVLLFRRLPrkVELTPAGELfieearaLLRQMEEV 79
Cdd:PRK03635 1 MLDYKQLEALAAVVREGSFERAAQKLHITQSAVSQRIKALEERVgQVLLVRTQP--CRPTEAGQR-------LLRHARQV 71
|
|
| PBP2_TdcA |
cd08418 |
The C-terminal substrate binding domain of LysR-type transcriptional regulator TdcA, which is ... |
107-285 |
1.22e-07 |
|
The C-terminal substrate binding domain of LysR-type transcriptional regulator TdcA, which is involved in the degradation of L-serine and L-threonine, contains the type 2 periplasmic binding fold; TdcA, a member of the LysR family, activates the expression of the anaerobically-regulated tdcABCDEFG operon which is involved in the degradation of L-serine and L-threonine to acetate and propionate, respectively. The tdc operon is comprised of one regulatory gene tdcA and six structural genes, tdcB to tdcG. The expression of the tdc operon is affected by several transcription factors including the cAMP receptor protein (CRP), integration host factor (IHF), histone-like protein (HU), and the operon specific regulators TdcA and TcdR. TcdR is divergently transcribed from the operon and encodes a small protein that is required for efficient expression of the Escherichia coli tdc operon. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.
Pssm-ID: 176110 [Multi-domain] Cd Length: 201 Bit Score: 51.20 E-value: 1.22e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 107 MKPMIEEFYQTFEFAELQINMEVFNGSWEAIAQGRADIVIGATSAIPVGGDFEVKDMGRLDWAFVMSPSHPCVREQNLNE 186
Cdd:cd08418 15 MPAVINRFKEQFPDVQISIYEGQLSSLLPELRDGRLDFAIGTLPDEMYLKELISEPLFESDFVVVARKDHPLQGARSLEE 94
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 187 efvsqypaicLDDTSSVLPKRHTGHYSNQRRLLLPNWYS---AIEC---------LKNGVGVGYMPRHIAAPIIEQGLLV 254
Cdd:cd08418 95 ----------LLDASWVLPGTRMGYYNNLLEALRRLGYNprvAVRTdsivsiinlVEKADFLTILSRDMGRGPLDSFRLI 164
|
170 180 190
....*....|....*....|....*....|..
gi 857787081 255 EKILPEPSPQSHCCLVWRKDDN-HKLIEWMVK 285
Cdd:cd08418 165 TIPVEEPLPSADYYLIYRKKSRlTPLAEQLVE 196
|
|
| PRK09801 |
PRK09801 |
LysR family transcriptional regulator; |
7-153 |
3.40e-07 |
|
LysR family transcriptional regulator;
Pssm-ID: 182085 [Multi-domain] Cd Length: 310 Bit Score: 50.80 E-value: 3.40e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 7 LEMLDTVARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRLPRKVELTPAGELFIEEARALLRQMEEVSAQTRRA 86
Cdd:PRK09801 11 LQVLVEIVHSGSFSAAAATLGQTPAFVTKRIQILENTLATTLLNRSARGVALTESGQRCYEHALEILTQYQRLVDDVTQI 90
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 857787081 87 ARGWKKTLRLTLDNVVKLDKMKPMIEEFYQTfeFAELQINMEVFNGSWEaIAQGRADIVIGATSAIP 153
Cdd:PRK09801 91 KTRPEGMIRIGCSFGFGRSHIAPAITELMRN--YPELQVHFELFDRQID-LVQDNIDLDIRINDEIP 154
|
|
| cysB |
PRK12681 |
HTH-type transcriptional regulator CysB; |
20-193 |
3.69e-07 |
|
HTH-type transcriptional regulator CysB;
Pssm-ID: 183678 [Multi-domain] Cd Length: 324 Bit Score: 50.67 E-value: 3.69e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 20 TAAAEQLHKVPSAISYGVRQVEQELDVLLFRR----LPRkveLTPAGELFIEEARALLRQME---EVSAQTRRAARGwkk 92
Cdd:PRK12681 20 SATAEGLYTSQPGISKQVRMLEDELGIQIFARsgkhLTQ---VTPAGEEIIRIAREILSKVEsikSVAGEHTWPDKG--- 93
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 93 TLRLTLDNVVKLDKMKPMIEEFYQTFEfaelQINMEVFNGS----WEAIAQGRADIVIgATSAIPVGGDFEVKDMGRLDW 168
Cdd:PRK12681 94 SLYIATTHTQARYALPPVIKGFIERYP----RVSLHMHQGSptqiAEAAAKGNADFAI-ATEALHLYDDLIMLPCYHWNR 168
|
170 180
....*....|....*....|....*
gi 857787081 169 AFVMSPSHPCVREQNLNEEFVSQYP 193
Cdd:PRK12681 169 SVVVPPDHPLAKKKKLTIEELAQYP 193
|
|
| PRK11233 |
PRK11233 |
nitrogen assimilation transcriptional regulator; Provisional |
16-83 |
6.41e-07 |
|
nitrogen assimilation transcriptional regulator; Provisional
Pssm-ID: 183045 [Multi-domain] Cd Length: 305 Bit Score: 50.07 E-value: 6.41e-07
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 857787081 16 LGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRLPRKVELTPAGELFIEEARALLRQMEEvsAQT 83
Cdd:PRK11233 15 IGSLTQAAEVLHIAQPALSQQVATLEGELNQQLLIRTKRGVTPTEAGKILYTHARAILRQCEQ--AQL 80
|
|
| PRK03601 |
PRK03601 |
HTH-type transcriptional regulator HdfR; |
8-73 |
1.59e-06 |
|
HTH-type transcriptional regulator HdfR;
Pssm-ID: 235137 [Multi-domain] Cd Length: 275 Bit Score: 48.47 E-value: 1.59e-06
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 857787081 8 EMLDT---VARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRLPRKVELTPAGELFIEEARALL 73
Cdd:PRK03601 4 ELLKTfleVSRTRHFGRAAESLYLTQSAVSFRIRQLENQLGVNLFTRHRNNIRLTAAGERLLPYAETLM 72
|
|
| PRK12683 |
PRK12683 |
transcriptional regulator CysB-like protein; Reviewed |
11-198 |
2.14e-06 |
|
transcriptional regulator CysB-like protein; Reviewed
Pssm-ID: 237172 [Multi-domain] Cd Length: 309 Bit Score: 48.50 E-value: 2.14e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 11 DTVARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLF-RRLPRKVELTPAGELFIEEARALLRQMEEVsaqtRRAARG 89
Cdd:PRK12683 11 EAVRQNFNLTEVANALYTSQSGVSKQIKDLEDELGVEIFiRRGKRLTGLTEPGKELLQIVERMLLDAENL----RRLAEQ 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 90 WKK--TLRLTLDNVVKLDK--MKPMIEEFYQTFEfaelQINMEVFNGSWEAIAQ----GRADIVIgATSAIPvggdfEVK 161
Cdd:PRK12683 87 FADrdSGHLTVATTHTQARyaLPKVVRQFKEVFP----KVHLALRQGSPQEIAEmllnGEADIGI-ATEALD-----REP 156
|
170 180 190 200
....*....|....*....|....*....|....*....|..
gi 857787081 162 DMGRL---DW--AFVMSPSHPCVREQNLNEEFVSQYPAICLD 198
Cdd:PRK12683 157 DLVSFpyySWhhVVVVPKGHPLTGRENLTLEAIAEYPIITYD 198
|
|
| PRK11151 |
PRK11151 |
DNA-binding transcriptional regulator OxyR; Provisional |
7-75 |
8.77e-06 |
|
DNA-binding transcriptional regulator OxyR; Provisional
Pssm-ID: 182999 [Multi-domain] Cd Length: 305 Bit Score: 46.56 E-value: 8.77e-06
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 857787081 7 LEMLDTVARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRLPRKVELTPAGELFIEEARALLRQ 75
Cdd:PRK11151 6 LEYLVALAEHRHFRRAADSCHVSQPTLSGQIRKLEDELGVMLLERTSRKVLFTQAGLLLVDQARTVLRE 74
|
|
| PRK11716 |
PRK11716 |
HTH-type transcriptional activator IlvY; |
27-75 |
1.41e-05 |
|
HTH-type transcriptional activator IlvY;
Pssm-ID: 236961 [Multi-domain] Cd Length: 269 Bit Score: 45.58 E-value: 1.41e-05
10 20 30 40
....*....|....*....|....*....|....*....|....*....
gi 857787081 27 HKVPSAISYGVRQVEQELDVLLFRRLPRKVELTPAGELFIEEARALLRQ 75
Cdd:PRK11716 2 HVSPSTLSRQIQRLEEELGQPLFVRDNRSVTLTEAGEELRPFAQQTLLQ 50
|
|
| PRK12682 |
PRK12682 |
transcriptional regulator CysB-like protein; Reviewed |
20-195 |
3.29e-05 |
|
transcriptional regulator CysB-like protein; Reviewed
Pssm-ID: 183679 [Multi-domain] Cd Length: 309 Bit Score: 44.60 E-value: 3.29e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 20 TAAAEQLHKVPSAISYGVRQVEQELDVLLF-RRLPRKVELTPAGELFIEEARALLRQMEEVSAQTRRAARGWKKTLRLTL 98
Cdd:PRK12682 20 TEAAKALHTSQPGVSKAIIELEEELGIEIFiRHGKRLKGLTEPGKAVLDVIERILREVGNIKRIGDDFSNQDSGTLTIAT 99
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 99 DNVVKLDKMKPMIEEFYQTFEfaelQINMEVFNGSWEAIAQ----GRADIVIgATSAIpvggdFEVKDMGRL---DW--A 169
Cdd:PRK12682 100 THTQARYVLPRVVAAFRKRYP----KVNLSLHQGSPDEIARmvisGEADIGI-ATESL-----ADDPDLATLpcyDWqhA 169
|
170 180
....*....|....*....|....*.
gi 857787081 170 FVMSPSHPCVREQNLNEEFVSQYPAI 195
Cdd:PRK12682 170 VIVPPDHPLAQEERITLEDLAEYPLI 195
|
|
| PRK14997 |
PRK14997 |
LysR family transcriptional regulator; Provisional |
13-146 |
4.98e-05 |
|
LysR family transcriptional regulator; Provisional
Pssm-ID: 184959 [Multi-domain] Cd Length: 301 Bit Score: 44.21 E-value: 4.98e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 13 VARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRLPRKVELTPAGELFIEEARALLRQME---EVSAQTRRAARG 89
Cdd:PRK14997 13 VVEEGGFAAAGRALDEPKSKLSRRIAQLEERLGVRLIQRTTRQFNVTEVGQTFYEHCKAMLVEAQaaqDAIAALQVEPRG 92
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*..
gi 857787081 90 wkkTLRLTLDNVVKLDKMKPMIEEFYQTFEFAELQinMEVFNGSWEAIAQGrADIVI 146
Cdd:PRK14997 93 ---IVKLTCPVTLLHVHIGPMLAKFMARYPDVSLQ--LEATNRRVDVVGEG-VDVAI 143
|
|
| PRK10082 |
PRK10082 |
hypochlorite stress DNA-binding transcriptional regulator HypT; |
12-145 |
3.01e-04 |
|
hypochlorite stress DNA-binding transcriptional regulator HypT;
Pssm-ID: 182228 [Multi-domain] Cd Length: 303 Bit Score: 41.96 E-value: 3.01e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857787081 12 TVARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRLPRKVELTPAGELFIEEARALLRQMEEVSAQTRRAARGWK 91
Cdd:PRK10082 21 TLEKCRNFSQAAVSRNVSQPAFSRRIRALEQAIGVELFNRQVTPLQLSEQGKIFHSQIRHLLQQLESNLAELRGGSDYAQ 100
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....
gi 857787081 92 KTLRLTLDNVVKLDKMKPMIEEFYQTFEFAELQINMEvfnGSWEAIAQGRADIV 145
Cdd:PRK10082 101 RKIKIAAAHSLSLGLLPSIISQMPPLFTWAIEAIDVD---EAVDKLREGQSDCI 151
|
|
| PRK15092 |
PRK15092 |
DNA-binding transcriptional repressor LrhA; Provisional |
7-74 |
1.28e-03 |
|
DNA-binding transcriptional repressor LrhA; Provisional
Pssm-ID: 237907 [Multi-domain] Cd Length: 310 Bit Score: 40.01 E-value: 1.28e-03
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 857787081 7 LEMLDT---VARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRLPRKVELTPAGELFIEEARALLR 74
Cdd:PRK15092 13 LDLLRTfvaVADLNTFAAAAAAVCRTQSAVSQQMQRLEQLVGKELFARHGRNKLLTEHGIQLLGYARKILR 83
|
|
| PRK09791 |
PRK09791 |
LysR family transcriptional regulator; |
13-76 |
1.79e-03 |
|
LysR family transcriptional regulator;
Pssm-ID: 182077 [Multi-domain] Cd Length: 302 Bit Score: 39.36 E-value: 1.79e-03
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 857787081 13 VARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRLPRKVELTPAGELFIEEARALLRQM 76
Cdd:PRK09791 16 VARQGSIRGASRMLNMSQPALTKSIQELEEGLAAQLFFRRSKGVTLTDAGESFYQHASLILEEL 79
|
|
| nhaR |
PRK11062 |
transcriptional activator NhaR; Provisional |
13-64 |
4.24e-03 |
|
transcriptional activator NhaR; Provisional
Pssm-ID: 182938 [Multi-domain] Cd Length: 296 Bit Score: 38.07 E-value: 4.24e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|..
gi 857787081 13 VARLGSFTAAAEQLHKVPSAISYGVRQVEQELDVLLFRRLPRKVELTPAGEL 64
Cdd:PRK11062 15 VCKEGSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPTELGEL 66
|
|
| |
