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Conserved domains on  [gi|447007134|ref|WP_001084390|]
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MULTISPECIES: LysR substrate-binding domain-containing protein [Enterobacteriaceae]

Protein Classification

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
PRK10094 super family cl32462
HTH-type transcriptional activator AllS;
5-293 3.92e-85

HTH-type transcriptional activator AllS;


The actual alignment was detected with superfamily member PRK10094:

Pssm-ID: 182237 [Multi-domain]  Cd Length: 308  Bit Score: 258.20  E-value: 3.92e-85
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134   5 FTEENLLAFTTAARFGSFSKAAEELGLTTSAISYTIKRMETGLDVVLFTRSTRSIELTESGRYFFRKATDLLNDFHAIKR 84
Cdd:PRK10094   2 FDPETLRTFIAVAETGSFSKAAERLCKTTATISYRIKLLEENTGVALFFRTTRSVTLTAAGEHLLSQARDWLSWLESMPS 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134  85 SIDTISQGIEARVRICINQLLYTPKHTARLLQVLKKQFPTCQITVTTEVYNGVWDAIINNQANIAIGAPDTLLDGGGIDY 164
Cdd:PRK10094  82 ELQQVNDGVERQVNIVINNLLYNPQAVAQLLAWLNERYPFTQFHISRQIYMGVWDSLLYEGFSLAIGVTGTEALANTFSL 161
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134 165 TEIGAIRWAFAIAPDHPLAFVPEPIAESQLRLYPNIMVEDTAHTINKKVGWLLHGQESILVPDFNTKCQCQILGEGIGFL 244
Cdd:PRK10094 162 DPLGSVQWRFVMAADHPLANVEEPLTEAQLRRFPAVNIEDSARTLTKRVAWRLPGQKEIIVPDMETKIAAHLAGVGIGFL 241
                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....*....
gi 447007134 245 PDYMVREAMAQSLLVTRQIHNPRQDSRMLLATQHSATGQVTQWIKKQFS 293
Cdd:PRK10094 242 PKSLCQSMIDNQQLVSRVIPTMRPPSPLSLAWRKFGSGKAVEDIVTLFT 290
 
Name Accession Description Interval E-value
PRK10094 PRK10094
HTH-type transcriptional activator AllS;
5-293 3.92e-85

HTH-type transcriptional activator AllS;


Pssm-ID: 182237 [Multi-domain]  Cd Length: 308  Bit Score: 258.20  E-value: 3.92e-85
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134   5 FTEENLLAFTTAARFGSFSKAAEELGLTTSAISYTIKRMETGLDVVLFTRSTRSIELTESGRYFFRKATDLLNDFHAIKR 84
Cdd:PRK10094   2 FDPETLRTFIAVAETGSFSKAAERLCKTTATISYRIKLLEENTGVALFFRTTRSVTLTAAGEHLLSQARDWLSWLESMPS 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134  85 SIDTISQGIEARVRICINQLLYTPKHTARLLQVLKKQFPTCQITVTTEVYNGVWDAIINNQANIAIGAPDTLLDGGGIDY 164
Cdd:PRK10094  82 ELQQVNDGVERQVNIVINNLLYNPQAVAQLLAWLNERYPFTQFHISRQIYMGVWDSLLYEGFSLAIGVTGTEALANTFSL 161
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134 165 TEIGAIRWAFAIAPDHPLAFVPEPIAESQLRLYPNIMVEDTAHTINKKVGWLLHGQESILVPDFNTKCQCQILGEGIGFL 244
Cdd:PRK10094 162 DPLGSVQWRFVMAADHPLANVEEPLTEAQLRRFPAVNIEDSARTLTKRVAWRLPGQKEIIVPDMETKIAAHLAGVGIGFL 241
                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....*....
gi 447007134 245 PDYMVREAMAQSLLVTRQIHNPRQDSRMLLATQHSATGQVTQWIKKQFS 293
Cdd:PRK10094 242 PKSLCQSMIDNQQLVSRVIPTMRPPSPLSLAWRKFGSGKAVEDIVTLFT 290
LysR COG0583
DNA-binding transcriptional regulator, LysR family [Transcription];
10-280 8.45e-46

DNA-binding transcriptional regulator, LysR family [Transcription];


Pssm-ID: 440348 [Multi-domain]  Cd Length: 256  Bit Score: 155.41  E-value: 8.45e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134  10 LLAFTTAARFGSFSKAAEELGLTTSAISYTIKRMETGLDVVLFTRSTRSIELTESGRYFFRKATDLLNDFHAIKRSIDTI 89
Cdd:COG0583    6 LRAFVAVAEEGSFTAAAERLGVSQPAVSRQIRRLEEELGVPLFERTGRGLRLTEAGERLLERARRILAELEEAEAELRAL 85
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134  90 SQGIEARVRICINQLLyTPKHTARLLQVLKKQFPTCQITVTTEVYNGVWDAIINNQANIAIGAPDtlLDGGGIDYTEIGA 169
Cdd:COG0583   86 RGGPRGTLRIGAPPSL-ARYLLPPLLARFRARHPGVRLELREGNSDRLVDALLEGELDLAIRLGP--PPDPGLVARPLGE 162
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134 170 IRWAFAIAPDHPLAfvpepiaesqlrlypnimvedtahtinkkvgwllhgQESILVPDFNTKCQCQILGEGIGFLPDYMV 249
Cdd:COG0583  163 ERLVLVASPDHPLA------------------------------------RRAPLVNSLEALLAAVAAGLGIALLPRFLA 206
                        250       260       270
                 ....*....|....*....|....*....|.
gi 447007134 250 REAMAQSLLVTRQIHNPRQDSRMLLATQHSA 280
Cdd:COG0583  207 ADELAAGRLVALPLPDPPPPRPLYLVWRRRR 237
PBP2_HupR cd08431
The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which ...
98-287 5.98e-36

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: 128.16  E-value: 5.98e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134  98 RICINQLLytpkHTARLLQVLK---KQFPTCQITVTTEVYNGVWDAIINNQANIAIGAPDTLLdGGGIDYTEIGAIRWAF 174
Cdd:cd08431    3 RIAIDTVL----PLQPLYPLIAefyQLNKATRIRLSEEVLGGTWDALASGRADLVIGATGELP-PGGVKTRPLGEVEFVF 77
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134 175 AIAPDHPLAFVPEPIAESQLRLYPNIMVEDTAHTINKKVGWLLHGQESILVPDFNTKCQCQILGEGIGFLPDYMVREAMA 254
Cdd:cd08431   78 AVAPNHPLAKLDGPLDASAIKQYPAIVVADTSRNLPPRSSGLLEGQDRIRVPTMQAKIDAQVLGLGVGYLPRHLAKPELA 157
                        170       180       190
                 ....*....|....*....|....*....|...
gi 447007134 255 QSLLVTRQIHNPRQDSRMLLATQHSATGQVTQW 287
Cdd:cd08431  158 SGELVEKALEDPRPPQELFLAWRKDQRGKALAW 190
LysR_substrate pfam03466
LysR substrate binding domain; The structure of this domain is known and is similar to the ...
96-280 2.97e-22

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: 91.97  E-value: 2.97e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134   96 RVRICINQLLyTPKHTARLLQVLKKQFPTCQITVTTEVYNGVWDAIINNQANIAIGAPDtlLDGGGIDYTEIGAIRWAFA 175
Cdd:pfam03466   3 RLRIGAPPTL-ASYLLPPLLARFRERYPDVELELTEGNSEELLDLLLEGELDLAIRRGP--PDDPGLEARPLGEEPLVLV 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134  176 IAPDHPLAfVPEPIAESQLRLYPNIMVEDTAHTINKKVGWL----LHGQESILVPDFNTKCQCQILGEGIGFLPDYMVRE 251
Cdd:pfam03466  80 APPDHPLA-RGEPVSLEDLADEPLILLPPGSGLRDLLDRALraagLRPRVVLEVNSLEALLQLVAAGLGIALLPRSAVAR 158
                         170       180
                  ....*....|....*....|....*....
gi 447007134  252 AMAQSLLVTRQIHNPRQDSRMLLATQHSA 280
Cdd:pfam03466 159 ELADGRLVALPLPEPPLPRELYLVWRKGR 187
LysR_Sec_metab NF040786
selenium metabolism-associated LysR family transcriptional regulator; LysR family ...
1-264 2.90e-21

selenium metabolism-associated LysR family transcriptional regulator; LysR family transcriptional regulators regularly appear encoded adjacent to selenecysteine incorporation proteins such as SelB. This model represents one especially well-conserved subgroup of such transcription factors from species such as Merdimonas faecis, Sellimonas intestinalis, Syntrophotalea acetylenica, and Hydrogenivirga caldilitoris. Seed alignment members were selected by proximity to selB, but not all family members are expected to have similar genomic locations.


Pssm-ID: 468737 [Multi-domain]  Cd Length: 298  Bit Score: 91.52  E-value: 2.90e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134   1 MNsiftEENLLAFTTAARFGSFSKAAEELGLTTSAISYTIKRMETGLDVVLFTRSTRSIELTESGRYFFRKATDLLNDFH 80
Cdd:NF040786   1 MN----LKQLEAFVNVAEYKSFSKAAKKLFLTQPTISAHISSLEKELGVRLFVRNTKEVSLTEDGKLLYEYAKEMLDLWE 76
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134  81 AIKRSIDTISQGIEARVRI---CINQLLYTPKhtarLLQVLKKQFPTCQITVTTEVYNGVWDAIINNQANIAI-GapdTL 156
Cdd:NF040786  77 KLEEEFDRYGKESKGVLRIgasTIPGQYLLPE----LLKKFKEKYPNVRFKLMISDSIKVIELLLEGEVDIGFtG---TK 149
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134 157 LDGGGIDYTEIGAIRWAfAIAPDHPLAF--VPEPIAESQLRLYPNIMVEDTAHTiNKKVGWLLHGQEsILVPDFNTKC-- 232
Cdd:NF040786 150 LEKKRLVYTPFYKDRLV-LITPNGTEKYrmLKEEISISELQKEPFIMREEGSGT-RKEAEKALKSLG-ISLEDLNVVAsl 226
                        250       260       270
                 ....*....|....*....|....*....|....*....
gi 447007134 233 -------QCQILGEGIGFLPDYMVREAMAQSLLVTRQIH 264
Cdd:NF040786 227 gsteaikQSVEAGLGISVISELAAEKEVERGRVLIFPIP 265
HTH_MARR smart00347
helix_turn_helix multiple antibiotic resistance protein;
21-90 1.11e-03

helix_turn_helix multiple antibiotic resistance protein;


Pssm-ID: 197670 [Multi-domain]  Cd Length: 101  Bit Score: 37.57  E-value: 1.11e-03
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 447007134    21 SFSKAAEELGLTTSAISYTIKRME-TGLdvVLFTRSTRS-----IELTESGRYFFRKATDLLNdfHAIKRSIDTIS 90
Cdd:smart00347  26 SVSELAKRLGVSPSTVTRVLDRLEkKGL--VRREPSPEDrrsvlVSLTEEGRELIEQLLEARS--ETLAELLAGLT 97
 
Name Accession Description Interval E-value
PRK10094 PRK10094
HTH-type transcriptional activator AllS;
5-293 3.92e-85

HTH-type transcriptional activator AllS;


Pssm-ID: 182237 [Multi-domain]  Cd Length: 308  Bit Score: 258.20  E-value: 3.92e-85
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134   5 FTEENLLAFTTAARFGSFSKAAEELGLTTSAISYTIKRMETGLDVVLFTRSTRSIELTESGRYFFRKATDLLNDFHAIKR 84
Cdd:PRK10094   2 FDPETLRTFIAVAETGSFSKAAERLCKTTATISYRIKLLEENTGVALFFRTTRSVTLTAAGEHLLSQARDWLSWLESMPS 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134  85 SIDTISQGIEARVRICINQLLYTPKHTARLLQVLKKQFPTCQITVTTEVYNGVWDAIINNQANIAIGAPDTLLDGGGIDY 164
Cdd:PRK10094  82 ELQQVNDGVERQVNIVINNLLYNPQAVAQLLAWLNERYPFTQFHISRQIYMGVWDSLLYEGFSLAIGVTGTEALANTFSL 161
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134 165 TEIGAIRWAFAIAPDHPLAFVPEPIAESQLRLYPNIMVEDTAHTINKKVGWLLHGQESILVPDFNTKCQCQILGEGIGFL 244
Cdd:PRK10094 162 DPLGSVQWRFVMAADHPLANVEEPLTEAQLRRFPAVNIEDSARTLTKRVAWRLPGQKEIIVPDMETKIAAHLAGVGIGFL 241
                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....*....
gi 447007134 245 PDYMVREAMAQSLLVTRQIHNPRQDSRMLLATQHSATGQVTQWIKKQFS 293
Cdd:PRK10094 242 PKSLCQSMIDNQQLVSRVIPTMRPPSPLSLAWRKFGSGKAVEDIVTLFT 290
PRK11074 PRK11074
putative DNA-binding transcriptional regulator; Provisional
5-288 7.75e-70

putative DNA-binding transcriptional regulator; Provisional


Pssm-ID: 182948 [Multi-domain]  Cd Length: 300  Bit Score: 218.66  E-value: 7.75e-70
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134   5 FTEENLLAFTTAARFGSFSKAAEELGLTTSAISYTIKRMETGLDVVLFTRSTRSIELTESGRYFFRKATDLLNDFHAIKR 84
Cdd:PRK11074   2 WSEYSLEVVDAVARTGSFSAAAQELHRVPSAVSYTVRQLEEWLAVPLFERRHRDVELTPAGEWFVKEARSVIKKMQETRR 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134  85 SIDTISQGIEARVRICINQLLyTPKHTARLLQVLKKQFPTCQITVTTEVYNGVWDAIINNQANIAIGAPDTLLDGGGIDY 164
Cdd:PRK11074  82 QCQQVANGWRGQLSIAVDNIV-RPDRTRQLIVDFYRHFDDVELIIRQEVFNGVWDALADGRVDIAIGATRAIPVGGRFAF 160
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134 165 TEIGAIRWAFAIAPDHPLAFVPEPIAESQLRLYPNIMVEDTAHTINKKVGWLLHGQESILVPDFNTKCQCQILGEGIGFL 244
Cdd:PRK11074 161 RDMGMLSWACVVSSDHPLASMDGPLSDDELRPYPSLCLEDTSRTLPKRITWLLDNQRRLVVPDWESAINCLSAGLCVGMV 240
                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....
gi 447007134 245 PDYMVREAMAQSLLVTRQIHNPRQDSRMLLATQHSATGQVTQWI 288
Cdd:PRK11074 241 PTHFAKPLINSGKLVELTLENPFPDSPCCLTWQQNDMSPALAWL 284
LysR COG0583
DNA-binding transcriptional regulator, LysR family [Transcription];
10-280 8.45e-46

DNA-binding transcriptional regulator, LysR family [Transcription];


Pssm-ID: 440348 [Multi-domain]  Cd Length: 256  Bit Score: 155.41  E-value: 8.45e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134  10 LLAFTTAARFGSFSKAAEELGLTTSAISYTIKRMETGLDVVLFTRSTRSIELTESGRYFFRKATDLLNDFHAIKRSIDTI 89
Cdd:COG0583    6 LRAFVAVAEEGSFTAAAERLGVSQPAVSRQIRRLEEELGVPLFERTGRGLRLTEAGERLLERARRILAELEEAEAELRAL 85
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134  90 SQGIEARVRICINQLLyTPKHTARLLQVLKKQFPTCQITVTTEVYNGVWDAIINNQANIAIGAPDtlLDGGGIDYTEIGA 169
Cdd:COG0583   86 RGGPRGTLRIGAPPSL-ARYLLPPLLARFRARHPGVRLELREGNSDRLVDALLEGELDLAIRLGP--PPDPGLVARPLGE 162
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134 170 IRWAFAIAPDHPLAfvpepiaesqlrlypnimvedtahtinkkvgwllhgQESILVPDFNTKCQCQILGEGIGFLPDYMV 249
Cdd:COG0583  163 ERLVLVASPDHPLA------------------------------------RRAPLVNSLEALLAAVAAGLGIALLPRFLA 206
                        250       260       270
                 ....*....|....*....|....*....|.
gi 447007134 250 REAMAQSLLVTRQIHNPRQDSRMLLATQHSA 280
Cdd:COG0583  207 ADELAAGRLVALPLPDPPPPRPLYLVWRRRR 237
PBP2_HupR cd08431
The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which ...
98-287 5.98e-36

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: 128.16  E-value: 5.98e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134  98 RICINQLLytpkHTARLLQVLK---KQFPTCQITVTTEVYNGVWDAIINNQANIAIGAPDTLLdGGGIDYTEIGAIRWAF 174
Cdd:cd08431    3 RIAIDTVL----PLQPLYPLIAefyQLNKATRIRLSEEVLGGTWDALASGRADLVIGATGELP-PGGVKTRPLGEVEFVF 77
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134 175 AIAPDHPLAFVPEPIAESQLRLYPNIMVEDTAHTINKKVGWLLHGQESILVPDFNTKCQCQILGEGIGFLPDYMVREAMA 254
Cdd:cd08431   78 AVAPNHPLAKLDGPLDASAIKQYPAIVVADTSRNLPPRSSGLLEGQDRIRVPTMQAKIDAQVLGLGVGYLPRHLAKPELA 157
                        170       180       190
                 ....*....|....*....|....*....|...
gi 447007134 255 QSLLVTRQIHNPRQDSRMLLATQHSATGQVTQW 287
Cdd:cd08431  158 SGELVEKALEDPRPPQELFLAWRKDQRGKALAW 190
LysR_substrate pfam03466
LysR substrate binding domain; The structure of this domain is known and is similar to the ...
96-280 2.97e-22

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: 91.97  E-value: 2.97e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134   96 RVRICINQLLyTPKHTARLLQVLKKQFPTCQITVTTEVYNGVWDAIINNQANIAIGAPDtlLDGGGIDYTEIGAIRWAFA 175
Cdd:pfam03466   3 RLRIGAPPTL-ASYLLPPLLARFRERYPDVELELTEGNSEELLDLLLEGELDLAIRRGP--PDDPGLEARPLGEEPLVLV 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134  176 IAPDHPLAfVPEPIAESQLRLYPNIMVEDTAHTINKKVGWL----LHGQESILVPDFNTKCQCQILGEGIGFLPDYMVRE 251
Cdd:pfam03466  80 APPDHPLA-RGEPVSLEDLADEPLILLPPGSGLRDLLDRALraagLRPRVVLEVNSLEALLQLVAAGLGIALLPRSAVAR 158
                         170       180
                  ....*....|....*....|....*....
gi 447007134  252 AMAQSLLVTRQIHNPRQDSRMLLATQHSA 280
Cdd:pfam03466 159 ELADGRLVALPLPEPPLPRELYLVWRKGR 187
LysR_Sec_metab NF040786
selenium metabolism-associated LysR family transcriptional regulator; LysR family ...
1-264 2.90e-21

selenium metabolism-associated LysR family transcriptional regulator; LysR family transcriptional regulators regularly appear encoded adjacent to selenecysteine incorporation proteins such as SelB. This model represents one especially well-conserved subgroup of such transcription factors from species such as Merdimonas faecis, Sellimonas intestinalis, Syntrophotalea acetylenica, and Hydrogenivirga caldilitoris. Seed alignment members were selected by proximity to selB, but not all family members are expected to have similar genomic locations.


Pssm-ID: 468737 [Multi-domain]  Cd Length: 298  Bit Score: 91.52  E-value: 2.90e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134   1 MNsiftEENLLAFTTAARFGSFSKAAEELGLTTSAISYTIKRMETGLDVVLFTRSTRSIELTESGRYFFRKATDLLNDFH 80
Cdd:NF040786   1 MN----LKQLEAFVNVAEYKSFSKAAKKLFLTQPTISAHISSLEKELGVRLFVRNTKEVSLTEDGKLLYEYAKEMLDLWE 76
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134  81 AIKRSIDTISQGIEARVRI---CINQLLYTPKhtarLLQVLKKQFPTCQITVTTEVYNGVWDAIINNQANIAI-GapdTL 156
Cdd:NF040786  77 KLEEEFDRYGKESKGVLRIgasTIPGQYLLPE----LLKKFKEKYPNVRFKLMISDSIKVIELLLEGEVDIGFtG---TK 149
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134 157 LDGGGIDYTEIGAIRWAfAIAPDHPLAF--VPEPIAESQLRLYPNIMVEDTAHTiNKKVGWLLHGQEsILVPDFNTKC-- 232
Cdd:NF040786 150 LEKKRLVYTPFYKDRLV-LITPNGTEKYrmLKEEISISELQKEPFIMREEGSGT-RKEAEKALKSLG-ISLEDLNVVAsl 226
                        250       260       270
                 ....*....|....*....|....*....|....*....
gi 447007134 233 -------QCQILGEGIGFLPDYMVREAMAQSLLVTRQIH 264
Cdd:NF040786 227 gsteaikQSVEAGLGISVISELAAEKEVERGRVLIFPIP 265
HTH_1 pfam00126
Bacterial regulatory helix-turn-helix protein, lysR family;
10-66 3.77e-19

Bacterial regulatory helix-turn-helix protein, lysR family;


Pssm-ID: 459683 [Multi-domain]  Cd Length: 60  Bit Score: 79.35  E-value: 3.77e-19
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 447007134   10 LLAFTTAARFGSFSKAAEELGLTTSAISYTIKRMETGLDVVLFTRSTRSIELTESGR 66
Cdd:pfam00126   4 LRLFVAVAETGSFTAAAERLGLSQPAVSRQIKRLEEELGVPLFERTTRGVRLTEAGE 60
PRK10086 PRK10086
DNA-binding transcriptional regulator DsdC;
9-93 4.19e-17

DNA-binding transcriptional regulator DsdC;


Pssm-ID: 182231 [Multi-domain]  Cd Length: 311  Bit Score: 80.05  E-value: 4.19e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134   9 NLLAFTTAARFGSFSKAAEELGLTTSAISYTIKRMETGLDVVLFTRSTRSIELTESGRYFfrkatdllndFHAIKRSIDT 88
Cdd:PRK10086  18 KLHTFEVAARHQSFALAADELSLTPSAVSHRINQLEEELGIKLFVRSHRKVELTEEGKRV----------FWALKSSLDT 87

                 ....*
gi 447007134  89 ISQGI 93
Cdd:PRK10086  88 LNQEI 92
PRK11139 PRK11139
DNA-binding transcriptional activator GcvA; Provisional
10-78 2.67e-15

DNA-binding transcriptional activator GcvA; Provisional


Pssm-ID: 182990 [Multi-domain]  Cd Length: 297  Bit Score: 74.88  E-value: 2.67e-15
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 447007134  10 LLAFTTAARFGSFSKAAEELGLTTSAISYTIKRMETGLDVVLFTRSTRSIELTESGRYFFRKATDLLND 78
Cdd:PRK11139  11 LRAFEAAARHLSFTRAAEELFVTQAAVSHQIKALEDFLGLKLFRRRNRSLLLTEEGQRYFLDIREIFDQ 79
PRK11716 PRK11716
HTH-type transcriptional activator IlvY;
31-194 3.95e-12

HTH-type transcriptional activator IlvY;


Pssm-ID: 236961 [Multi-domain]  Cd Length: 269  Bit Score: 65.22  E-value: 3.95e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134  31 LTTSAISYTIKRMETGLDVVLFTRSTRSIELTESGRYFFRKATDLLNDFHAIKRSIDTISQGIEARVRI-CINQLLYTpk 109
Cdd:PRK11716   3 VSPSTLSRQIQRLEEELGQPLFVRDNRSVTLTEAGEELRPFAQQTLLQWQQLRHTLDQQGPSLSGELSLfCSVTAAYS-- 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134 110 HTARLLQVLKKQFPTCQITVTTevynGvwDA------IINNQANIAIGA-PDTLLDggGIDYTEIGAIRWAFaIAPDHPL 182
Cdd:PRK11716  81 HLPPILDRFRAEHPLVEIKLTT----G--DAadavekVQSGEADLAIAAkPETLPA--SVAFSPIDEIPLVL-IAPALPC 151
                        170
                 ....*....|..
gi 447007134 183 AfVPEPIAESQL 194
Cdd:PRK11716 152 P-VRQQLSQEKP 162
PRK10632 PRK10632
HTH-type transcriptional activator AaeR;
13-82 8.84e-12

HTH-type transcriptional activator AaeR;


Pssm-ID: 182601 [Multi-domain]  Cd Length: 309  Bit Score: 64.78  E-value: 8.84e-12
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134  13 FTTAARFGSFSKAAEELGLTTSAISYTIKRMETGLDVVLFTRSTRSIELTESGRYFFRKATDLLNDFHAI 82
Cdd:PRK10632  10 FAKVVEFGSFTAAARQLQMSVSSISQTVSKLEDELQVKLLNRSTRSIGLTEAGRIYYQGCRRMLHEVQDV 79
PRK15421 PRK15421
HTH-type transcriptional regulator MetR;
20-263 3.13e-11

HTH-type transcriptional regulator MetR;


Pssm-ID: 185319 [Multi-domain]  Cd Length: 317  Bit Score: 63.11  E-value: 3.13e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134  20 GSFSKAAEELGLTTSAISYTIKRMETGLDVVLFTRSTRSIELTESGRYFFRKATDLLNDfhaIKRSIDTISQGIEARVRI 99
Cdd:PRK15421  17 GSLAAAAATLHQTQSALSHQFSDLEQRLGFRLFVRKSQPLRFTPQGEILLQLANQVLPQ---ISQALQACNEPQQTRLRI 93
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134 100 ------CINQLlyTPKhtarlLQVLKKQFPTCQITVTTEVYNGVWDAIINNQANIAIGApdTLLDGGGIDYTEIGAIRWA 173
Cdd:PRK15421  94 aiechsCIQWL--TPA-----LENFHKNWPQVEMDFKSGVTFDPQPALQQGELDLVMTS--DILPRSGLHYSPMFDYEVR 164
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134 174 FAIAPDHPLA----FVPEPIAESQLRLYPnimVEDTAHTInkkvgWLLHGQESILVPDF----NTKCQCQILGE--GIGF 243
Cdd:PRK15421 165 LVLAPDHPLAaktrITPEDLASETLLIYP---VQRSRLDV-----WRHFLQPAGVSPSLksvdNTLLLIQMVAArmGIAA 236
                        250       260
                 ....*....|....*....|
gi 447007134 244 LPDYMVREAMAQSLLVTRQI 263
Cdd:PRK15421 237 LPHWVVESFERQGLVVTKTL 256
rbcR CHL00180
LysR transcriptional regulator; Provisional
5-150 8.07e-11

LysR transcriptional regulator; Provisional


Pssm-ID: 177082 [Multi-domain]  Cd Length: 305  Bit Score: 61.57  E-value: 8.07e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134   5 FTEENLLAFTTAARFGSFSKAAEELGLTTSAISYTIKRMETGLDVVLFTRSTRSIELTESGRYFFRKATDLLNDFHAIKR 84
Cdd:CHL00180   5 FTLDQLRILKAIATEGSFKKAAESLYISQPAVSLQIKNLEKQLNIPLFDRSKNKASLTEAGELLLRYGNRILALCEETCR 84
                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 447007134  85 SIDTISQGIEARVRICINQLLYT---PkhtaRLLQVLKKQFPtcQITVTTEVYNG---VWdAIINNQANIAI 150
Cdd:CHL00180  85 ALEDLKNLQRGTLIIGASQTTGTylmP----RLIGLFRQRYP--QINVQLQVHSTrriAW-NVANGQIDIAI 149
PRK11242 PRK11242
DNA-binding transcriptional regulator CynR; Provisional
13-194 1.76e-10

DNA-binding transcriptional regulator CynR; Provisional


Pssm-ID: 183051 [Multi-domain]  Cd Length: 296  Bit Score: 60.74  E-value: 1.76e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134  13 FTTAARFGSFSKAAEELGLTTSAISYTIKRMETGLDVVLFTRSTRSIELTESGRYFFRKATDLLNDFHAIKRSI---DTI 89
Cdd:PRK11242   9 FLAVAEHGNFTRAAEALHVSQPTLSQQIRQLEESLGVQLFDRSGRTVRLTDAGEVYLRYARRALQDLEAGRRAIhdvADL 88
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134  90 SQGieaRVRICInqllyTPKHTARLLQVLKKQF----PTCQITVTTEVYNGVWDAIINNQANIAIGAPDTLLDggGIDYT 165
Cdd:PRK11242  89 SRG---SLRLAM-----TPTFTAYLIGPLIDAFharyPGITLTIREMSQERIEALLADDELDVGIAFAPVHSP--EIEAQ 158
                        170       180
                 ....*....|....*....|....*....
gi 447007134 166 EIGAIRWAFAIAPDHPLAFVPEPIAESQL 194
Cdd:PRK11242 159 PLFTETLALVVGRHHPLAARRKALTLDEL 187
PRK09801 PRK09801
LysR family transcriptional regulator;
1-127 5.01e-09

LysR family transcriptional regulator;


Pssm-ID: 182085 [Multi-domain]  Cd Length: 310  Bit Score: 56.58  E-value: 5.01e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134   1 MNSIFTEENLLAFTTAARFGSFSKAAEELGLTTSAISYTIKRMETGLDVVLFTRSTRSIELTESGRYFFRKATDLLNDFH 80
Cdd:PRK09801   2 LNSWPLAKDLQVLVEIVHSGSFSAAAATLGQTPAFVTKRIQILENTLATTLLNRSARGVALTESGQRCYEHALEILTQYQ 81
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*...
gi 447007134  81 AIKRSIDTISQGIEARVRI-CinQLLYTPKHTARLLQVLKKQFPTCQI 127
Cdd:PRK09801  82 RLVDDVTQIKTRPEGMIRIgC--SFGFGRSHIAPAITELMRNYPELQV 127
PRK03601 PRK03601
HTH-type transcriptional regulator HdfR;
8-91 6.84e-08

HTH-type transcriptional regulator HdfR;


Pssm-ID: 235137 [Multi-domain]  Cd Length: 275  Bit Score: 52.71  E-value: 6.84e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134   8 ENLLAFTTAARFGSFSKAAEELGLTTSAISYTIKRMETGLDVVLFTRSTRSIELTESGRYFFRKATDLLNDFHAIKRSID 87
Cdd:PRK03601   4 ELLKTFLEVSRTRHFGRAAESLYLTQSAVSFRIRQLENQLGVNLFTRHRNNIRLTAAGERLLPYAETLMNTWQAAKKEVA 83

                 ....
gi 447007134  88 TISQ 91
Cdd:PRK03601  84 HTSQ 87
PRK13348 PRK13348
HTH-type transcriptional regulator ArgP;
10-95 9.40e-08

HTH-type transcriptional regulator ArgP;


Pssm-ID: 237357 [Multi-domain]  Cd Length: 294  Bit Score: 52.28  E-value: 9.40e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134  10 LLAFTTAARFGSFSKAAEELGLTTSAISYTIKRMETGLDVVLFTRsTRSIELTESGRYFFRKAT-------DLLNDFHAI 82
Cdd:PRK13348   7 LEALAAVVETGSFERAARRLHVTPSAVSQRIKALEESLGQPLLVR-GRPCRPTPAGQRLLRHLRqvalleaDLLSTLPAE 85
                         90
                 ....*....|...
gi 447007134  83 KRSIDTISQGIEA 95
Cdd:PRK13348  86 RGSPPTLAIAVNA 98
PRK09791 PRK09791
LysR family transcriptional regulator;
10-86 1.20e-07

LysR family transcriptional regulator;


Pssm-ID: 182077 [Multi-domain]  Cd Length: 302  Bit Score: 52.07  E-value: 1.20e-07
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 447007134  10 LLAFTTAARFGSFSKAAEELGLTTSAISYTIKRMETGLDVVLFTRSTRSIELTESGRYFFRKATDLLNDFHAIKRSI 86
Cdd:PRK09791  10 IRAFVEVARQGSIRGASRMLNMSQPALTKSIQELEEGLAAQLFFRRSKGVTLTDAGESFYQHASLILEELRAAQEDI 86
PBP2_LTTR_substrate cd05466
The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the ...
112-276 2.08e-07

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: 50.29  E-value: 2.08e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134 112 ARLLQVLKKQFPTCQITVTTEVYNGVWDAIINNQANIAIGApdTLLDGGGIDYTEIGAIRWAFAIAPDHPLAFvPEPIAE 191
Cdd:cd05466   16 PPLLAAFRQRYPGVELSLVEGGSSELLEALLEGELDLAIVA--LPVDDPGLESEPLFEEPLVLVVPPDHPLAK-RKSVTL 92
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134 192 SQLRLYPNIMVEDT------AHTINKKVGwlLHGQESILVPDFNTKCQCQILGEGIGFLPDYMVREAMAQSlLVTRQIHN 265
Cdd:cd05466   93 ADLADEPLILFERGsglrrlLDRAFAEAG--FTPNIALEVDSLEAIKALVAAGLGIALLPESAVEELADGG-LVVLPLED 169
                        170
                 ....*....|.
gi 447007134 266 PRQDSRMLLAT 276
Cdd:cd05466  170 PPLSRTIGLVW 180
PRK14997 PRK14997
LysR family transcriptional regulator; Provisional
13-259 1.05e-06

LysR family transcriptional regulator; Provisional


Pssm-ID: 184959 [Multi-domain]  Cd Length: 301  Bit Score: 49.22  E-value: 1.05e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134  13 FTTAARFGSFSKAAEELGLTTSAISYTIKRMETGLDVVLFTRSTRSIELTESGRYFFRKATDLLNDFHAIKRSIDTISQG 92
Cdd:PRK14997  10 FVHVVEEGGFAAAGRALDEPKSKLSRRIAQLEERLGVRLIQRTTRQFNVTEVGQTFYEHCKAMLVEAQAAQDAIAALQVE 89
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134  93 IEARVRI-CINQLLYTpkHTARLLQVLKKQFPtcQITVTTEVYNGVWDaIINNQANIAIGA-PDTLLDGGGIdyTEIGAI 170
Cdd:PRK14997  90 PRGIVKLtCPVTLLHV--HIGPMLAKFMARYP--DVSLQLEATNRRVD-VVGEGVDVAIRVrPRPFEDSDLV--MRVLAD 162
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134 171 RWAFAIAPDHPLAFVPEPIAESQLRLYPNIMVEDTAHtINKkvgWLLHGQES----------ILVPDFNTKCQCQILGEG 240
Cdd:PRK14997 163 RGHRLFASPDLIARMGIPSAPAELSHWPGLSLASGKH-IHR---WELYGPQGaraevhftprMITTDMLALREAAMAGVG 238
                        250
                 ....*....|....*....
gi 447007134 241 IGFLPDYMVREAMAQSLLV 259
Cdd:PRK14997 239 LVQLPVLMVKEQLAAGELV 257
PRK10341 PRK10341
transcriptional regulator TdcA;
1-158 2.88e-06

transcriptional regulator TdcA;


Pssm-ID: 182391 [Multi-domain]  Cd Length: 312  Bit Score: 47.93  E-value: 2.88e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134   1 MNSIF--TEENLLAFTTAARFGSFSKAAEELGLTTSAISYTIKRMETGLDVVLFTRSTRSIELTESGRYFFRKATDLLND 78
Cdd:PRK10341   1 MSTILlpKTQHLVVFQEVIRSGSIGSAAKELGLTQPAVSKIINDIEDYFGVELIVRKNTGVTLTPAGQVLLSRSESITRE 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134  79 FHAIKRSIDTISQGIEARVRICINQLL-YTpkHTARLLQVLKKQFPTCQITVTTEVYNGVWDAIINNQANIAIGapdTLL 157
Cdd:PRK10341  81 MKNMVNEINGMSSEAVVDVSFGFPSLIgFT--FMSDMINKFKEVFPKAQVSMYEAQLSSFLPAIRDGRLDFAIG---TLS 155

                 .
gi 447007134 158 D 158
Cdd:PRK10341 156 N 156
PRK12683 PRK12683
transcriptional regulator CysB-like protein; Reviewed
23-197 6.15e-06

transcriptional regulator CysB-like protein; Reviewed


Pssm-ID: 237172 [Multi-domain]  Cd Length: 309  Bit Score: 46.96  E-value: 6.15e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134  23 SKAAEELGLTTSAISYTIKRMETGLDVVLFTRS-TRSIELTESGRYFFRKATDLLNDFHAIKRSIDTISQGIEARvrici 101
Cdd:PRK12683  20 TEVANALYTSQSGVSKQIKDLEDELGVEIFIRRgKRLTGLTEPGKELLQIVERMLLDAENLRRLAEQFADRDSGH----- 94
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134 102 nqLLYTPKHT-AR-----LLQVLKKQFPtcqiTVTTEVYNG----VWDAIINNQANIAIgAPDTLLDGGGIdyTEIGAIR 171
Cdd:PRK12683  95 --LTVATTHTqARyalpkVVRQFKEVFP----KVHLALRQGspqeIAEMLLNGEADIGI-ATEALDREPDL--VSFPYYS 165
                        170       180       190
                 ....*....|....*....|....*....|..
gi 447007134 172 WAFAI--APDHPLAFVPEP----IAESQLRLY 197
Cdd:PRK12683 166 WHHVVvvPKGHPLTGRENLtleaIAEYPIITY 197
nhaR PRK11062
transcriptional activator NhaR; Provisional
20-72 7.75e-06

transcriptional activator NhaR; Provisional


Pssm-ID: 182938 [Multi-domain]  Cd Length: 296  Bit Score: 46.54  E-value: 7.75e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 447007134  20 GSFSKAAEELGLTTSAISYTIKRMETGLDVVLFTRSTRSIELTESGRYFFRKA 72
Cdd:PRK11062  19 GSVVGAAEALFLTPQTITGQIKALEERLQGKLFKRKGRGLEPTELGELVFRYA 71
PRK03635 PRK03635
ArgP/LysG family DNA-binding transcriptional regulator;
10-66 8.50e-06

ArgP/LysG family DNA-binding transcriptional regulator;


Pssm-ID: 235144 [Multi-domain]  Cd Length: 294  Bit Score: 46.31  E-value: 8.50e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 447007134  10 LLAFTTAARFGSFSKAAEELGLTTSAISYTIKRMETGLDVVLFTRsTRSIELTESGR 66
Cdd:PRK03635   7 LEALAAVVREGSFERAAQKLHITQSAVSQRIKALEERVGQVLLVR-TQPCRPTEAGQ 62
PRK09986 PRK09986
LysR family transcriptional regulator;
22-101 9.17e-06

LysR family transcriptional regulator;


Pssm-ID: 182183 [Multi-domain]  Cd Length: 294  Bit Score: 46.25  E-value: 9.17e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134  22 FSKAAEELGLTTSAISYTIKRMETGLDVVLFTRSTRSIELTESGRYFFRKATDLL-NDFHAIKRsIDTISQGIEARVRIC 100
Cdd:PRK09986  24 FGRAAARLNISQPPLSIHIKELEDQLGTPLFIRHSRSVVLTHAGKILMEESRRLLdNAEQSLAR-VEQIGRGEAGRIEIG 102

                 .
gi 447007134 101 I 101
Cdd:PRK09986 103 I 103
PRK10837 PRK10837
putative DNA-binding transcriptional regulator; Provisional
13-76 1.76e-05

putative DNA-binding transcriptional regulator; Provisional


Pssm-ID: 182768 [Multi-domain]  Cd Length: 290  Bit Score: 45.45  E-value: 1.76e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 447007134  13 FTTAARFGSFSKAAEELGLTTSAISYTIKRMETGLDVVLFTRSTRSIELTESGRYFFRKATDLL 76
Cdd:PRK10837  11 FAEVLKSGSTTQASVMLALSQSAVSAALTDLEGQLGVQLFDRVGKRLVVNEHGRLLYPRALALL 74
PRK09906 PRK09906
DNA-binding transcriptional regulator HcaR; Provisional
13-72 9.06e-05

DNA-binding transcriptional regulator HcaR; Provisional


Pssm-ID: 182137 [Multi-domain]  Cd Length: 296  Bit Score: 43.22  E-value: 9.06e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134  13 FTTAARFGSFSKAAEELGLTTSAISYTIKRMETGLDVVLFTRSTRSIELTESGRYFFRKA 72
Cdd:PRK09906   9 FVAVAEELNFTKAAEKLHTAQPSLSQQIKDLENCVGVPLLVRDKRKVALTAAGEVFLQDA 68
PBP2_CysL_like cd08420
C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which ...
113-267 2.59e-04

C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; CysL, also known as YwfK, is a regular of sulfur metabolism in Bacillus subtilis. Sulfur is required for the synthesis of proteins and essential cofactors in all living organism. Sulfur can be assimilated either from inorganic sources (sulfate and thiosulfate), or from organic sources (sulfate esters, sulfamates, and sulfonates). CysL activates the transcription of the cysJI operon encoding sulfite reductase, which reduces sulfite to sulfide. Both cysL mutant and cysJI mutant are unable to grow using sulfate or sulfite as the sulfur source. Like other LysR-type regulators, CysL also negatively regulates its own transcription. In Escherichia coli, three LysR-type activators are involved in the regulation of sulfur metabolism: CysB, Cbl and MetR. The 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.


Pssm-ID: 176112 [Multi-domain]  Cd Length: 201  Bit Score: 41.32  E-value: 2.59e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134 113 RLLQVLKKQFPtcQITVTTEVYN--GVWDAIINNQANIA-IGAPdtlLDGGGIDYTEIGAIRWAFAIAPDHPLAFVPEPI 189
Cdd:cd08420   17 RLLARFRKRYP--EVRVSLTIGNteEIAERVLDGEIDLGlVEGP---VDHPDLIVEPFAEDELVLVVPPDHPLAGRKEVT 91
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447007134 190 AEsQLRLYPNIM----------VEDT-----AHTINKKVGWLLHGQESILvpdfntkcQCQILGEGIGFLPDYMVREAMA 254
Cdd:cd08420   92 AE-ELAAEPWILrepgsgtrevFERAlaeagLDGLDLNIVMELGSTEAIK--------EAVEAGLGISILSRLAVRKELE 162
                        170
                 ....*....|...
gi 447007134 255 QSLLVTRQIHNPR 267
Cdd:cd08420  163 LGRLVALPVEGLR 175
HTH_MARR smart00347
helix_turn_helix multiple antibiotic resistance protein;
21-90 1.11e-03

helix_turn_helix multiple antibiotic resistance protein;


Pssm-ID: 197670 [Multi-domain]  Cd Length: 101  Bit Score: 37.57  E-value: 1.11e-03
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 447007134    21 SFSKAAEELGLTTSAISYTIKRME-TGLdvVLFTRSTRS-----IELTESGRYFFRKATDLLNdfHAIKRSIDTIS 90
Cdd:smart00347  26 SVSELAKRLGVSPSTVTRVLDRLEkKGL--VRREPSPEDrrsvlVSLTEEGRELIEQLLEARS--ETLAELLAGLT 97
PRK10082 PRK10082
hypochlorite stress DNA-binding transcriptional regulator HypT;
10-81 2.91e-03

hypochlorite stress DNA-binding transcriptional regulator HypT;


Pssm-ID: 182228 [Multi-domain]  Cd Length: 303  Bit Score: 38.88  E-value: 2.91e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 447007134  10 LLAFTTAARFGSFSKAAEELGLTTSAISYTIKRMETGLDVVLFTRSTRSIELTESGRYFFRKATDLLNDFHA 81
Cdd:PRK10082  16 LYDFLTLEKCRNFSQAAVSRNVSQPAFSRRIRALEQAIGVELFNRQVTPLQLSEQGKIFHSQIRHLLQQLES 87
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

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