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Conserved domains on  [gi|1752642815|gb|KAA9221920|]
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transcriptional regulator LldR [Acinetobacter baumannii]

Protein Classification

transcriptional regulator LldR( domain architecture ID 11484713)

transcriptional regulator LldR may be a regulatory protein for the LCT genes

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK10421 PRK10421
DNA-binding transcriptional repressor LldR; Provisional
 1-250 6.23e-155

DNA-binding transcriptional repressor LldR; Provisional


:

Pssm-ID: 236690 [Multi-domain]  Cd Length: 253  Bit Score: 430.73  E-value: 6.23e-155
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815   1 MRISDQVVMKLQALIEERHMKKGDRLPAERQLATSLGVSRPSLREAIQQLNSQGVLISRRGDGTYIQQLPEQWPQQLIVN 80
Cdd:PRK10421    1 RRLSDEVADRVRALIEEKNLEAGMKLPAERQLAMQLGVSRNSLREALAKLVSEGVLLSRRGGGTFIRWRHETWSEQNIVQ 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815  81 PISNLIEEDPLYRFDVQEARLVLEGGTAWYAALRSTPEDRAKIHHYFNEISrhqnAGDSAQAAVADAEFHLAIAEASHNV 160
Cdd:PRK10421   81 PLKTLMADDPDYSFDILEARHAIEASTAWHAAMRATPGDKEKIQLCFEATL----SEDPDLASQADVRFHLAIAEASHNV 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815 161 VLIQMMRSLFDLLQYNVLLGRKKVYNDPVNGDLLSEQHFQVMDAIDRKDPEAARQAVCGHIEFVINHVRSLDEDEARQKR 240
Cdd:PRK10421  157 VLLQTMRGFFDVLQSSVKQSRQRMYLVPPVFSQLTEQHQAVMDAILAGDAEGARKAMMAHLSFVHTTIKRFDEDQARQAR 236

                         250
                  ....*....|
gi 1752642815 241 ANRLNRVDSK 250
Cdd:PRK10421  237 ITRLPGDHNE 246
 
Name Accession Description Interval E-value
PRK10421 PRK10421
DNA-binding transcriptional repressor LldR; Provisional
 1-250 6.23e-155

DNA-binding transcriptional repressor LldR; Provisional


Pssm-ID: 236690 [Multi-domain]  Cd Length: 253  Bit Score: 430.73  E-value: 6.23e-155
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815   1 MRISDQVVMKLQALIEERHMKKGDRLPAERQLATSLGVSRPSLREAIQQLNSQGVLISRRGDGTYIQQLPEQWPQQLIVN 80
Cdd:PRK10421    1 RRLSDEVADRVRALIEEKNLEAGMKLPAERQLAMQLGVSRNSLREALAKLVSEGVLLSRRGGGTFIRWRHETWSEQNIVQ 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815  81 PISNLIEEDPLYRFDVQEARLVLEGGTAWYAALRSTPEDRAKIHHYFNEISrhqnAGDSAQAAVADAEFHLAIAEASHNV 160
Cdd:PRK10421   81 PLKTLMADDPDYSFDILEARHAIEASTAWHAAMRATPGDKEKIQLCFEATL----SEDPDLASQADVRFHLAIAEASHNV 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815 161 VLIQMMRSLFDLLQYNVLLGRKKVYNDPVNGDLLSEQHFQVMDAIDRKDPEAARQAVCGHIEFVINHVRSLDEDEARQKR 240
Cdd:PRK10421  157 VLLQTMRGFFDVLQSSVKQSRQRMYLVPPVFSQLTEQHQAVMDAILAGDAEGARKAMMAHLSFVHTTIKRFDEDQARQAR 236

                         250
                  ....*....|
gi 1752642815 241 ANRLNRVDSK 250
Cdd:PRK10421  237 ITRLPGDHNE 246
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
2-237 3.14e-63

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


Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 197.46  E-value: 3.14e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815   2 RISDQVVMKLQALIEERHMKKGDRLPAERQLATSLGVSRPSLREAIQQLNSQGVLISRRGDGTYIQQLPEqwpqQLIVNP 81
Cdd:COG2186     7 SLAEQVAEQLRELILSGELKPGDRLPSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVREPSP----WALLDP 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815  82 ISNLIEEDPLYRFDVQEARLVLEGGTAWYAALRSTPEDRAKIHHYFNEIsrHQNAGDSAQAAVADAEFHLAIAEASHNVV 161
Cdd:COG2186    83 LALLLALDDASLRDLLEARLALEPEAARLAAERATDEDLARLEAALAEM--EAAADDGEAFAEADLAFHRAIAEASGNPL 160

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1752642815 162 LIQMMRSLFDLLQYNVLLGrkkvYNDPVNGDLLSEQHFQVMDAIDRKDPEAARQAVCGHIEFVINHVRSLDEDEAR 237
Cdd:COG2186   161 LALLLESLRELLRRSVRLT----LRSPEARERSLAEHRAILDAIRAGDPEAARAAMRAHLEAVRERLREALAERAR 232
FCD smart00895
This entry represents the C-terminal ligand binding domain of many members of the GntR family; ...
 95-222 6.20e-23

This entry represents the C-terminal ligand binding domain of many members of the GntR family; This domain probably binds to a range of effector molecules that regulate the transcription of genes through the action of the N-terminal DNA-binding domain. This domain is found in and that are regulators of sugar biosynthesis operons. Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities. The HTH GntR family has many members distributed among diverse bacterial groups that regulate various biological processes. It was named GntR after the Bacillus subtilis repressor of the gluconate operon. In general, these proteins contain a DNA-binding HTH domain at the N terminus, and an effector binding or oligomerisation domain at the C terminus. The winged-helix DNA-binding domain is well conserved in structure for the whole of the GntR family, and is similar in structure to other transcriptional regulator families. The C-terminal effector-binding and oligomerisation domains are more variable and are consequently used to define the subfamilies. Based on the sequence and structure of the C-terminal domains, the GtnR family can be divided into four major groups, as represented by FadR, HutC, MocR and YtrA, as well as some minor groups such as those represented by AraR and PlmA.


Pssm-ID: 214892 [Multi-domain]  Cd Length: 123  Bit Score: 90.11  E-value: 6.20e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815   95 DVQEARLVLEGGTAWYAALRSTPEDRAKIHHYFNEISRHQNAGDSAQAAV-ADAEFHLAIAEASHNVVLIQMMRSLFDLL 173
Cdd:smart00895   1 ELYEVRRALEPLAARLAAERATDEDLAALEALLDAMEAAAAAGDDLEEFAeLDREFHRALAEAAGNPVLLELLESLRARL 80

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*....
gi 1752642815  174 QYNVLLGRKKVyndpvngDLLSEQHFQVMDAIDRKDPEAARQAVCGHIE 222
Cdd:smart00895  81 RRLRRLSLEAA-------RRALDEHRAILDAIRARDAEAARAAMREHLE 122
FCD pfam07729
FCD domain; This domain is the C-terminal ligand binding domain of many members of the GntR ...
 95-217 4.55e-22

FCD domain; This domain is the C-terminal ligand binding domain of many members of the GntR family. This domain binds to a range of effector molecules, including Lactate, Zn(II), Ni(II), Ca(II), Mg(II), citrate, sugar acids, sialic acid and N-acetylglucosamine-6-P, that regulate the transcription of genes through the action of the N-terminal DNA-binding domain pfam00392 (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043). This domain is found in Swiss:P45427 and Swiss:P31460 that are regulators of sugar biosynthesis operons. It is also in the known structure of FadR where it binds to acyl-coA, the domain is alpha helical. This family has been named as FCD for (FadR C-terminal Domain).


Pssm-ID: 429623 [Multi-domain]  Cd Length: 121  Bit Score: 87.81  E-value: 4.55e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815  95 DVQEARLVLEGGTAWYAALRSTPEDRAKIHHYFNEISRHQNAGDSAQAAVADAEFHLAIAEASHNVVLIQMMRSLFDLLQ 174
Cdd:pfam07729   1 ELYELRAALEPLAARLAAERATDEDLAELEALLEALEAAADAGDLEAFAEADREFHLALAEAAGNPVLARMLESLWDRLR 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 1752642815 175 YNVLLgrkkVYNDPVNGDLLSEQHFQVMDAIDRKDPEAARQAV 217
Cdd:pfam07729  81 RLRRL----LLSSPGRLRASLEEHRAILDAIRARDPEAARAAM 119
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 3-66 1.14e-17

Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is presumed to result in a conformational change that regulates the DNA-binding affinity of the repressor. The GntR-like proteins bind as dimers, where each monomer recognizes a half-site of 2-fold symmetric DNA sequences.


Pssm-ID: 153418 [Multi-domain]  Cd Length: 66  Bit Score: 74.79  E-value: 1.14e-17
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1752642815   3 ISDQVVMKLQALIEERHMKKGDRLPAERQLATSLGVSRPSLREAIQQLNSQGVLISRRGDGTYI 66
Cdd:cd07377     2 LYEQIADQLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFV 65
C_P_lyase_phnF TIGR02325
phosphonates metabolism transcriptional regulator PhnF; All members of the seed alignment for ...
 6-74 7.61e-10

phosphonates metabolism transcriptional regulator PhnF; All members of the seed alignment for this family are predicted helix-turn-helix transcriptional regulatory proteins of the broader gntR and are found associated with genes for the import and degradation of phosphonates and/or related compounds (e.g. phosphonites) with a direct C-P bond. [Transport and binding proteins, Anions, Regulatory functions, DNA interactions]


Pssm-ID: 131378 [Multi-domain]  Cd Length: 238  Bit Score: 57.49  E-value: 7.61e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1752642815   6 QVVMKLQALIEERHMKKGDRLPAERQLATSLGVSRPSLREAIQQLNSQGVLISRRGDGTYIQQLPEQWP 74
Cdd:TIGR02325  12 QIADKIEQEIAAGHLRAGDYLPAEMQLAERFGVNRHTVRRAIAALVERGLLRAEQGRGTFVAARRIDYP 80
 
Name Accession Description Interval E-value
PRK10421 PRK10421
DNA-binding transcriptional repressor LldR; Provisional
 1-250 6.23e-155

DNA-binding transcriptional repressor LldR; Provisional


Pssm-ID: 236690 [Multi-domain]  Cd Length: 253  Bit Score: 430.73  E-value: 6.23e-155
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815   1 MRISDQVVMKLQALIEERHMKKGDRLPAERQLATSLGVSRPSLREAIQQLNSQGVLISRRGDGTYIQQLPEQWPQQLIVN 80
Cdd:PRK10421    1 RRLSDEVADRVRALIEEKNLEAGMKLPAERQLAMQLGVSRNSLREALAKLVSEGVLLSRRGGGTFIRWRHETWSEQNIVQ 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815  81 PISNLIEEDPLYRFDVQEARLVLEGGTAWYAALRSTPEDRAKIHHYFNEISrhqnAGDSAQAAVADAEFHLAIAEASHNV 160
Cdd:PRK10421   81 PLKTLMADDPDYSFDILEARHAIEASTAWHAAMRATPGDKEKIQLCFEATL----SEDPDLASQADVRFHLAIAEASHNV 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815 161 VLIQMMRSLFDLLQYNVLLGRKKVYNDPVNGDLLSEQHFQVMDAIDRKDPEAARQAVCGHIEFVINHVRSLDEDEARQKR 240
Cdd:PRK10421  157 VLLQTMRGFFDVLQSSVKQSRQRMYLVPPVFSQLTEQHQAVMDAILAGDAEGARKAMMAHLSFVHTTIKRFDEDQARQAR 236

                         250
                  ....*....|
gi 1752642815 241 ANRLNRVDSK 250
Cdd:PRK10421  237 ITRLPGDHNE 246
FadR COG2186
DNA-binding transcriptional regulator, FadR family [Transcription];
2-237 3.14e-63

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


Pssm-ID: 441789 [Multi-domain]  Cd Length: 232  Bit Score: 197.46  E-value: 3.14e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815   2 RISDQVVMKLQALIEERHMKKGDRLPAERQLATSLGVSRPSLREAIQQLNSQGVLISRRGDGTYIQQLPEqwpqQLIVNP 81
Cdd:COG2186     7 SLAEQVAEQLRELILSGELKPGDRLPSERELAEQLGVSRTTVREALRALEALGLVEVRQGGGTFVREPSP----WALLDP 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815  82 ISNLIEEDPLYRFDVQEARLVLEGGTAWYAALRSTPEDRAKIHHYFNEIsrHQNAGDSAQAAVADAEFHLAIAEASHNVV 161
Cdd:COG2186    83 LALLLALDDASLRDLLEARLALEPEAARLAAERATDEDLARLEAALAEM--EAAADDGEAFAEADLAFHRAIAEASGNPL 160

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1752642815 162 LIQMMRSLFDLLQYNVLLGrkkvYNDPVNGDLLSEQHFQVMDAIDRKDPEAARQAVCGHIEFVINHVRSLDEDEAR 237
Cdd:COG2186   161 LALLLESLRELLRRSVRLT----LRSPEARERSLAEHRAILDAIRAGDPEAARAAMRAHLEAVRERLREALAERAR 232
pdhR PRK09464
pyruvate dehydrogenase complex transcriptional repressor PdhR;
2-243 1.47e-55

pyruvate dehydrogenase complex transcriptional repressor PdhR;


Pssm-ID: 181879 [Multi-domain]  Cd Length: 254  Bit Score: 178.68  E-value: 1.47e-55
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815   2 RISDQVVMKLQALIEERHMKKGDRLPAERQLATSLGVSRPSLREAIQQLNSQGVLISRRGDGTYIQQlpEQWpqQLIVNP 81
Cdd:PRK09464   10 KLSDVIEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQS--SLW--QSFSDP 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815  82 ISNLIEEDPLYRFDVQEARLVLEGGTAWYAALRSTPEDRAKIHHYFNEISRHQNAGDSAQAAVADAEFHLAIAEASHNVV 161
Cdd:PRK09464   86 LVELLSDHPESQFDLLETRHALEGIAAYYAALRGTDEDFERIRECHHAIELAQQSGDLDAEANAVMQYQIAVTEAAHNVV 165

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815 162 LIQMMRSLFDLLQYNVLLGRKKVYNDPVNGDLLSEQHFQVMDAIDRKDPEAARQAVCGHIEFVINHVRSLDEDEARQKRA 241
Cdd:PRK09464  166 LLHLLRCMEPMLEQNVRQNFELLYRRREMLPKVSSHRARIFEAIVAGKPEKAREASHRHLAFIEEILLDLSREESRRERS 245


                  ..
gi 1752642815 242 NR 243
Cdd:PRK09464  246 LR 247
PRK09990 PRK09990
DNA-binding transcriptional regulator GlcC; Provisional
 2-243 2.65e-38

DNA-binding transcriptional regulator GlcC; Provisional


Pssm-ID: 182186 [Multi-domain]  Cd Length: 251  Bit Score: 134.12  E-value: 2.65e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815   2 RISDQVVMKLQALIEERHMKKGDRLPAERQLATSLGVSRPSLREAIQQLNSQGVLISRRGDGTYIQQLPEQWPQqlivNP 81
Cdd:PRK09990    7 PIADVVAERIERLIVDGVLKVGQALPSERRLCEKLGFSRSALREGLTVLRGRGIIETAQGRGSFVARLNRVQDA----SP 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815  82 ISNLIEEDPLYRFDVQEARLVLEGGTAWYAALRSTPEDRAKIHHYFNE-ISRHQN--AGDSAQAAVADAEFHLAIAEASH 158
Cdd:PRK09990   83 LMHLFSSQPRTLYDLLEVRALLEGESARLAALRGTQADFVLITRRYEEmLAAHENnkEIDPIEHARLDHAFHLAICEASH 162

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815 159 NVVLIQMMRSLFDLLQYNVLLGRKKVYNDPVNGDLLSEQHFQVMDAIDRKDPEAARQAVCGHIEFVINHVRSLDEDEARQ 238
Cdd:PRK09990  163 NPVLVHTLQSLTDLMLSSVFASVNNLYHRPQQKKQIDRQHARLYNAVLQRLPEQAQRAARDHIRTVRDNLREIEQEEQRL 242


                  ....*
gi 1752642815 239 KRANR 243
Cdd:PRK09990  243 VRATL 247
GntR COG1802
DNA-binding transcriptional regulator, GntR family [Transcription];
3-237 6.81e-31

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


Pssm-ID: 441407 [Multi-domain]  Cd Length: 222  Bit Score: 113.86  E-value: 6.81e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815   3 ISDQVVMKLQALIEERHMKKGDRLPaERQLATSLGVSRPSLREAIQQLNSQGVLISRRGDGTYiqqlpeqwpqqliVNPI 82
Cdd:COG1802    12 LAEQVYEALREAILSGELPPGERLS-EAELAERLGVSRTPVREALRRLEAEGLVEIRPNRGAR-------------VAPL 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815  83 SnliEEDplyRFDVQEARLVLEGGTAWYAALRSTPEDRAKIHHYFNEISRHQNAGDSAQAAVADAEFHLAIAEASHNVVL 162
Cdd:COG1802    78 S---PEE---IRELYEVRAALEGLAARLAAERATPADLARLRALLEELEAAAAAGDVAAYLELDREFHRALVEAAGNPRL 151

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1752642815 163 IQMMRSLFDLLQynvlLGRKKVYNDPVNGDLLSEQHFQVMDAIDRKDPEAARQAVCGHIEFVINHVRSLDEDEAR 237
Cdd:COG1802   152 AELLRRLRARLR----RYRRLSLRSPGRLEESLAEHRAILDALEAGDAEAAAAALRAHLERARERLLEALAAAAA 222
PRK10225 PRK10225
Uxu operon transcriptional regulator;
2-224 6.35e-25

Uxu operon transcriptional regulator;


Pssm-ID: 182318 [Multi-domain]  Cd Length: 257  Bit Score: 99.32  E-value: 6.35e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815   2 RISDQVVMKLQALIEERHMKKGDRLPAERQLATSLGVSRPSLREAIQQLNSQGVLISRRGDGTYIQQLPEQWPQQLIVNP 81
Cdd:PRK10225    9 RPYQEVGAMIRDLIIKTPYNPGERLPPEREIAEMLDVTRTVVREALIMLEIKGLVEVRRGAGIYVLDSSGSHNTDSPDAN 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815  82 ISNliEEDPlyrFDVQEARLVLEGGTAWYAALRSTPEDRAKIHHYFNEISRHQNAGDSAQAAVADAEFHLAIAEASHNVV 161
Cdd:PRK10225   89 VCN--DAGP---FELLQARQLLESNIAEFAALQATREDIVKMRQALQLEERELASSAPGSSESGDMQFHLAIAEATHNSM 163

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1752642815 162 LIQMMRSLFDLLQYNVL-LGRKKVYNDPVNGDLLSEQHFQVMDAIDRKDPEAARQAVCGHIEFV 224
Cdd:PRK10225  164 LVELFRQSWQWRENNPMwIQLHSHLDDSLYRKEWLGDHKQILAALIKKDARAAKLAMWQHLENV 227
PRK03837 PRK03837
transcriptional regulator NanR; Provisional
 2-224 9.69e-25

transcriptional regulator NanR; Provisional


Pssm-ID: 235166 [Multi-domain]  Cd Length: 241  Bit Score: 98.17  E-value: 9.69e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815   2 RISDQVVMKLQALIEERHMKKGDRLPAERQLATSLGVSRPSLREAIQQLNSQGVL---------ISRRGDGTYIQQLPEQ 72
Cdd:PRK03837   13 KLSEEVEERLEQMIRSGEFGPGDQLPSERELMAFFGVGRPAVREALQALKRKGLVqishgerarVSRPSADTIIGQLSGM 92

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815  73 WPQQLIVNPisnlieeDPLYRFDvqEARLVLEGGTAWYAALRSTPEDRAKIHhyfNEISRH-QNAGDSAQAAVADAEFHL 151
Cdd:PRK03837   93 AKDFLSQSP-------DGLAHLK--QARLFFESSLARYAAEHATDEQIALLR---KALERNsQSLGDNAAFIRSDMEFHR 160

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1752642815 152 AIAEASHNVVLIQMMRSLFD-LLQYnvllgRKKVYNDPVNGDLLSEQHFQVMDAIDRKDPEAARQAVCGHIEFV 224
Cdd:PRK03837  161 VIAEIPGNPIFMAIHEALLDwLIEA-----RPEVVILHGHENVTLQEHIAIVDAIRAHDPDEADRALQSHLNRV 229
FCD smart00895
This entry represents the C-terminal ligand binding domain of many members of the GntR family; ...
 95-222 6.20e-23

This entry represents the C-terminal ligand binding domain of many members of the GntR family; This domain probably binds to a range of effector molecules that regulate the transcription of genes through the action of the N-terminal DNA-binding domain. This domain is found in and that are regulators of sugar biosynthesis operons. Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities. The HTH GntR family has many members distributed among diverse bacterial groups that regulate various biological processes. It was named GntR after the Bacillus subtilis repressor of the gluconate operon. In general, these proteins contain a DNA-binding HTH domain at the N terminus, and an effector binding or oligomerisation domain at the C terminus. The winged-helix DNA-binding domain is well conserved in structure for the whole of the GntR family, and is similar in structure to other transcriptional regulator families. The C-terminal effector-binding and oligomerisation domains are more variable and are consequently used to define the subfamilies. Based on the sequence and structure of the C-terminal domains, the GtnR family can be divided into four major groups, as represented by FadR, HutC, MocR and YtrA, as well as some minor groups such as those represented by AraR and PlmA.


Pssm-ID: 214892 [Multi-domain]  Cd Length: 123  Bit Score: 90.11  E-value: 6.20e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815   95 DVQEARLVLEGGTAWYAALRSTPEDRAKIHHYFNEISRHQNAGDSAQAAV-ADAEFHLAIAEASHNVVLIQMMRSLFDLL 173
Cdd:smart00895   1 ELYEVRRALEPLAARLAAERATDEDLAALEALLDAMEAAAAAGDDLEEFAeLDREFHRALAEAAGNPVLLELLESLRARL 80

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*....
gi 1752642815  174 QYNVLLGRKKVyndpvngDLLSEQHFQVMDAIDRKDPEAARQAVCGHIE 222
Cdd:smart00895  81 RRLRRLSLEAA-------RRALDEHRAILDAIRARDAEAARAAMREHLE 122
FCD pfam07729
FCD domain; This domain is the C-terminal ligand binding domain of many members of the GntR ...
 95-217 4.55e-22

FCD domain; This domain is the C-terminal ligand binding domain of many members of the GntR family. This domain binds to a range of effector molecules, including Lactate, Zn(II), Ni(II), Ca(II), Mg(II), citrate, sugar acids, sialic acid and N-acetylglucosamine-6-P, that regulate the transcription of genes through the action of the N-terminal DNA-binding domain pfam00392 (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043). This domain is found in Swiss:P45427 and Swiss:P31460 that are regulators of sugar biosynthesis operons. It is also in the known structure of FadR where it binds to acyl-coA, the domain is alpha helical. This family has been named as FCD for (FadR C-terminal Domain).


Pssm-ID: 429623 [Multi-domain]  Cd Length: 121  Bit Score: 87.81  E-value: 4.55e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815  95 DVQEARLVLEGGTAWYAALRSTPEDRAKIHHYFNEISRHQNAGDSAQAAVADAEFHLAIAEASHNVVLIQMMRSLFDLLQ 174
Cdd:pfam07729   1 ELYELRAALEPLAARLAAERATDEDLAELEALLEALEAAADAGDLEAFAEADREFHLALAEAAGNPVLARMLESLWDRLR 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 1752642815 175 YNVLLgrkkVYNDPVNGDLLSEQHFQVMDAIDRKDPEAARQAV 217
Cdd:pfam07729  81 RLRRL----LLSSPGRLRASLEEHRAILDAIRARDPEAARAAM 119
WHTH_GntR cd07377
Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional ...
 3-66 1.14e-17

Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is presumed to result in a conformational change that regulates the DNA-binding affinity of the repressor. The GntR-like proteins bind as dimers, where each monomer recognizes a half-site of 2-fold symmetric DNA sequences.


Pssm-ID: 153418 [Multi-domain]  Cd Length: 66  Bit Score: 74.79  E-value: 1.14e-17
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1752642815   3 ISDQVVMKLQALIEERHMKKGDRLPAERQLATSLGVSRPSLREAIQQLNSQGVLISRRGDGTYI 66
Cdd:cd07377     2 LYEQIADQLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGRGTFV 65
PRK11523 PRK11523
transcriptional regulator ExuR;
2-222 3.35e-17

transcriptional regulator ExuR;


Pssm-ID: 183176 [Multi-domain]  Cd Length: 253  Bit Score: 78.35  E-value: 3.35e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815   2 RISDQVVMKLQALIEERHMKKGDRLPAERQLATSLGVSRPSLREAIQQLNSQGVLISRRGDGtyIQQLPEQwPQQLIVNp 81
Cdd:PRK11523    8 RLYQQLAAELKERIEQGVYLVGDKLPAERFIADEKNVSRTVVREAIIMLEVEGYVEVRKGSG--IHVVSNQ-PRHQQAA- 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815  82 iSNLIEEDPLYRFDVQEARLVLEGGTAWYAALRSTPEDRAKIHhyfnEISRHQNAGDSAQAAVADAEFHLAIAEASHNVV 161
Cdd:PRK11523   84 -DNNMEFANYGPFELLQARQLIESNIAEFAATQVTKQDIMKLM----AIQEQARGEDCFRDSEWDLQFHVQVALATQNSA 158

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1752642815 162 LIQMMRSLFDLLQYNVLLGRKKVYNDPVNGDLLSEQHFQVMDAIDRKDPEAARQAVCGHIE 222
Cdd:PRK11523  159 LAAIVEKMWTQRSHNPYWKKLHEHIDDRTVDNWCDDHDQILKALIRKDPHAAKLAMWQHLE 219
GntR pfam00392
Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the ...
 4-66 2.96e-15

Bacterial regulatory proteins, gntR family; This family of regulatory proteins consists of the N-terminal HTH region of GntR-like bacterial transcription factors. At the C-terminus there is usually an effector-binding/oligomerization domain. The GntR-like proteins include the following sub-families: MocR, YtrR, FadR, AraR, HutC and PlmA, DevA, DasR. Many of these proteins have been shown experimentally to be autoregulatory, enabling the prediction of operator sites and the discovery of cis/trans relationships. The DasR regulator has been shown to be a global regulator of primary metabolism and development in Streptomyces coelicolor.


Pssm-ID: 306822 [Multi-domain]  Cd Length: 64  Bit Score: 68.02  E-value: 2.96e-15
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1752642815   4 SDQVVMKLQALIEERHMKKGDRLPAERQLATSLGVSRPSLREAIQQLNSQGVLISRRGDGTYI 66
Cdd:pfam00392   2 YEQVYARLREDILSGRLRPGDKLPSERELAAEFGVSRTTVREALRRLEAEGLVERRQGRGTFV 64
MngR COG2188
DNA-binding transcriptional regulator, GntR family [Transcription];
6-72 8.68e-15

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


Pssm-ID: 441791 [Multi-domain]  Cd Length: 238  Bit Score: 71.43  E-value: 8.68e-15
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1752642815   6 QVVMKLQALIEERHMKKGDRLPAERQLATSLGVSRPSLREAIQQLNSQGVLISRRGDGTYIQQLPEQ 72
Cdd:COG2188     9 QIADALRERIESGELPPGDRLPSERELAEEFGVSRMTVRKALDELVEEGLLERRQGRGTFVAEPKIE 75
HTH_GNTR smart00345
helix_turn_helix gluconate operon transcriptional repressor;
7-66 6.68e-14

helix_turn_helix gluconate operon transcriptional repressor;


Pssm-ID: 197669 [Multi-domain]  Cd Length: 60  Bit Score: 64.52  E-value: 6.68e-14
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815    7 VVMKLQALIEERHMKKGDRLPAERQLATSLGVSRPSLREAIQQLNSQGVLISRRGDGTYI 66
Cdd:smart00345   1 VAERLREDIVSGELRPGDKLPSERELAAQLGVSRTTVREALSRLEAEGLVQRRPGSGTFV 60
ARO8 COG1167
DNA-binding transcriptional regulator, MocR family, contains an aminotransferase domain ...
 6-66 6.48e-12

DNA-binding transcriptional regulator, MocR family, contains an aminotransferase domain [Transcription, Amino acid transport and metabolism]; DNA-binding transcriptional regulator, MocR family, contains an aminotransferase domain is part of the Pathway/BioSystem: Lysine biosynthesis


Pssm-ID: 440781 [Multi-domain]  Cd Length: 471  Bit Score: 64.46  E-value: 6.48e-12
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1752642815   6 QVVMKLQALIEERHMKKGDRLPAERQLATSLGVSRPSLREAIQQLNSQGVLISRRGDGTYI 66
Cdd:COG1167    16 QLADALREAILSGRLPPGDRLPSSRELAAQLGVSRSTVVRAYEELEAEGLIESRPGSGTFV 76
C_P_lyase_phnF TIGR02325
phosphonates metabolism transcriptional regulator PhnF; All members of the seed alignment for ...
 6-74 7.61e-10

phosphonates metabolism transcriptional regulator PhnF; All members of the seed alignment for this family are predicted helix-turn-helix transcriptional regulatory proteins of the broader gntR and are found associated with genes for the import and degradation of phosphonates and/or related compounds (e.g. phosphonites) with a direct C-P bond. [Transport and binding proteins, Anions, Regulatory functions, DNA interactions]


Pssm-ID: 131378 [Multi-domain]  Cd Length: 238  Bit Score: 57.49  E-value: 7.61e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1752642815   6 QVVMKLQALIEERHMKKGDRLPAERQLATSLGVSRPSLREAIQQLNSQGVLISRRGDGTYIQQLPEQWP 74
Cdd:TIGR02325  12 QIADKIEQEIAAGHLRAGDYLPAEMQLAERFGVNRHTVRRAIAALVERGLLRAEQGRGTFVAARRIDYP 80
YhcF COG1725
DNA-binding transcriptional regulator YhcF, GntR family [Transcription];
3-88 2.23e-09

DNA-binding transcriptional regulator YhcF, GntR family [Transcription];


Pssm-ID: 441331 [Multi-domain]  Cd Length: 114  Bit Score: 53.64  E-value: 2.23e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1752642815   3 ISDQVVMKLQALIEERHMKKGDRLPAERQLATSLGVSRPSLREAIQQLNSQGVLISRRGDGTYI----QQLPEQWPQQLI 78
Cdd:COG1725    11 IYEQIADQIKEAIASGELKPGDRLPSVRELAAELGVNPNTVAKAYRELEDEGLIETRRGKGTFVaedaRELLEERREEFL 90

                          90
                  ....*....|
gi 1752642815  79 VNPISNLIEE 88
Cdd:COG1725    91 EEALRELVAE 100
PRK09764 PRK09764
GntR family transcriptional regulator;
6-68 8.13e-08

GntR family transcriptional regulator;


Pssm-ID: 182065 [Multi-domain]  Cd Length: 240  Bit Score: 51.75  E-value: 8.13e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1752642815   6 QVVMKLQALIEERHMKKGDRLPAERQLATSLGVSRPSLREAIQQLNSQGVLISRRGDGTYIQQ 68
Cdd:PRK09764    9 QIADRIREQIARGELKPGDALPTESALQTEFGVSRVTVRQALRQLVEQQILESIQGSGTYVKE 71
PRK11402 PRK11402
transcriptional regulator PhoB;
23-67 1.57e-06

transcriptional regulator PhoB;


Pssm-ID: 183118 [Multi-domain]  Cd Length: 241  Bit Score: 47.91  E-value: 1.57e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1752642815  23 GDRLPAERQLATSLGVSRPSLREAIQQLNSQGVLISRRGDGTYIQ 67
Cdd:PRK11402   30 GQQIPTENELCTQYNVSRITIRKAISDLVADGVLIRWQGKGTFVQ 74
PRK10079 PRK10079
phosphonate metabolism transcriptional regulator PhnF; Provisional
 19-74 3.55e-06

phosphonate metabolism transcriptional regulator PhnF; Provisional


Pssm-ID: 182227 [Multi-domain]  Cd Length: 241  Bit Score: 46.69  E-value: 3.55e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1752642815  19 HMKKGDRLPAERQLATSLGVSRPSLREAIQQLNSQGVLISRRGDGTYIQQLPEQWP 74
Cdd:PRK10079   28 HYRCGDYLPAEQQLAARYEVNRHTLRRAIDQLVEKGWVQRRQGVGVLVLMRPYDYP 83
PRK15481 PRK15481
transcriptional regulatory protein PtsJ; Provisional
 3-71 1.08e-04

transcriptional regulatory protein PtsJ; Provisional


Pssm-ID: 185378 [Multi-domain]  Cd Length: 431  Bit Score: 42.73  E-value: 1.08e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1752642815   3 ISDQVvmklQALIEERHMKKGDRLPAERQLATSLGVSRPSLREAIQQLNSQGVLISRRGDGTYIQQLPE 71
Cdd:PRK15481   10 IFDSI----RQLIQAGRLRPGDSLPPVRELASELGVNRNTVAAAYKRLVTAGLAQSQGRNGTVIRGSPS 74
PRK04984 PRK04984
fatty acid metabolism transcriptional regulator FadR;
26-56 1.58e-03

fatty acid metabolism transcriptional regulator FadR;


Pssm-ID: 179909 [Multi-domain]  Cd Length: 239  Bit Score: 38.70  E-value: 1.58e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1752642815  26 LPAERQLATSLGVSRPSLREAIQQLNSQGVL 56
Cdd:PRK04984   31 LPAERELSELIGVTRTTLREVLQRLARDGWL 61
PRK14999 PRK14999
histidine utilization repressor; Provisional
 24-68 4.40e-03

histidine utilization repressor; Provisional


Pssm-ID: 184961 [Multi-domain]  Cd Length: 241  Bit Score: 37.60  E-value: 4.40e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1752642815  24 DRLPAERQLATSLGVSRPSLREAIQQLNSQGVLISRRGDGTYIQQ 68
Cdd:PRK14999   34 DRIPSEAELVAQYGFSRMTINRALRELTDEGWLVRLQGVGTFVAE 78
MCM8_WHD cd22247
winged-helix domain (WHD) found in minichromosome maintenance 8 (MCM8) and similar proteins; ...
 30-65 9.52e-03

winged-helix domain (WHD) found in minichromosome maintenance 8 (MCM8) and similar proteins; MCM8 is a DNA helicase that is a component of the MCM8-MCM9 complex, which is involved in the repair of double-stranded DNA breaks (DBSs) and DNA interstrand cross-links (ICLs) by homologous recombination (HR). The MCM8-MCM9 complex is also required for DNA resection by the MRE11-RAD50-NBN/NBS1 (MRN) complex by recruiting the MRN complex to the repair site and by promoting its nuclease activity. This model corresponds to the C-terminal winged-helix domain (WHD) of MCM8, which mediates protein-nucleic acid interaction, as well as protein-protein interaction.


Pssm-ID: 439328 [Multi-domain]  Cd Length: 66  Bit Score: 34.00  E-value: 9.52e-03
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 1752642815  30 RQLATSLGVSRPSLREAIQQLNSQGVLIsRRGDGTY 65
Cdd:cd22247    29 KQIAKELGLQVDDFDDFIESLNNQGYLL-KKGPNLY 63
 
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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