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Conserved domains on  [gi|446265532|ref|WP_000343387|]
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MULTISPECIES: TrmB family transcriptional regulator [Bacillus]

Protein Classification

TrmB family transcriptional regulator( domain architecture ID 11443337)

TrmB family transcriptional regulator similar to Pyrococcus furiosus TrmB, a sugar-sensing repressor that recognizes two different operator sequences controlling the TM (Trehalose/Maltose) and the MD (Maltodextrin) operon encoding the respective ABC transporters and sugar-degrading enzymes

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
YrhO COG1378
Sugar-specific transcriptional regulator TrmB [Transcription];
3-235 1.36e-54

Sugar-specific transcriptional regulator TrmB [Transcription];


:

Pssm-ID: 440988 [Multi-domain]  Cd Length: 238  Bit Score: 176.36  E-value: 1.36e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446265532   3 EIIKELQKLGFSQYECKAYIGLLKHSPVTGYEVSKQTGVPRSMIYEVLGKLMDKGAVHIVPSEPVKYVSVPATELMNRMR 82
Cdd:COG1378    1 ELIELLEKLGLSEYEAKVYLALLELGPATASELAKASGVPRSRVYDVLESLEEKGLVEVSEGRPKRYRAVPPEEALERLL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446265532  83 KDFEKSFEFLDEKLNCLEQE---RQIDVISHIRSNDRVLKEICNIINRAKEELWISVWEDQV--HEIEPYIHQKEEEGVH 157
Cdd:COG1378   81 EEREEELEELREELEELYEElrePEEELVWVVKGREAILERLRELIASAEEEILIVLSPPELllEELEEALEEALERGVK 160

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 446265532 158 IFSILFGAPETKIGATFHHNymtpHVVEKRMGGHLTVIARDGEEVLIANFSNDSTSWAVTTYDPALVLVATEYVRHDI 235
Cdd:COG1378  161 VRVLVSPEVLEVPERLEEEG----EEVRVLPGLPGRLLIVDDKEALISVSEPDGEETAIWIEDPELAALLRELFETLW 234
 
Name Accession Description Interval E-value
YrhO COG1378
Sugar-specific transcriptional regulator TrmB [Transcription];
3-235 1.36e-54

Sugar-specific transcriptional regulator TrmB [Transcription];


Pssm-ID: 440988 [Multi-domain]  Cd Length: 238  Bit Score: 176.36  E-value: 1.36e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446265532   3 EIIKELQKLGFSQYECKAYIGLLKHSPVTGYEVSKQTGVPRSMIYEVLGKLMDKGAVHIVPSEPVKYVSVPATELMNRMR 82
Cdd:COG1378    1 ELIELLEKLGLSEYEAKVYLALLELGPATASELAKASGVPRSRVYDVLESLEEKGLVEVSEGRPKRYRAVPPEEALERLL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446265532  83 KDFEKSFEFLDEKLNCLEQE---RQIDVISHIRSNDRVLKEICNIINRAKEELWISVWEDQV--HEIEPYIHQKEEEGVH 157
Cdd:COG1378   81 EEREEELEELREELEELYEElrePEEELVWVVKGREAILERLRELIASAEEEILIVLSPPELllEELEEALEEALERGVK 160

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 446265532 158 IFSILFGAPETKIGATFHHNymtpHVVEKRMGGHLTVIARDGEEVLIANFSNDSTSWAVTTYDPALVLVATEYVRHDI 235
Cdd:COG1378  161 VRVLVSPEVLEVPERLEEEG----EEVRVLPGLPGRLLIVDDKEALISVSEPDGEETAIWIEDPELAALLRELFETLW 234
PLDc_like_TrmB_middle cd09124
Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; ...
 108-237 8.50e-29

Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Middle phospholipase D (PLD)-like domain of the transcriptional regulator TrmB and similar proteins. TrmB acts as a bifunctional sugar-sensing transcriptional regulator which controls two operons encoding maltose/trehalose and maltodextrin ABC transporters of Pyrococcus fruiosus. It functions as a dimer. Full length TrmB includes an N-terminal DNA-binding domain, a C-terminal sugar-binding domain and middle region that has been named as a PLD-like domain. The middle domain displays homology to PLD enzymes, which contain one or two HKD motifs (H-x-K-x(4)-D, where x represents any amino acid residue) per chain. The HKD motif characterizes the PLD superfamily. Due to the lack of key residues related to PLD activity in the PLD-like domain, members of this subfamily are unlikely to carry PLD activity.


Pssm-ID: 197223 [Multi-domain]  Cd Length: 126  Bit Score: 106.26  E-value: 8.50e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446265532 108 ISHIRSNDRVLKEICNIINRAKEELWISVWEDQVHEIEPYIHQKEEEGVHIFSILFGAPETKigatfhHNYMTPHVVEKR 187
Cdd:cd09124    2 VWTIKGEENILAKIREMINSAKEEIYISLPSEELEELLEELEKAAERGVKVVIIIFGDDDLD------DLDSPAIEVRVR 75

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 446265532 188 M-GGHLTVIARDGEEVLIANFSNDSTSWAVTTYDPALVLVATEYVRHDIMV 237
Cdd:cd09124   76 EgGGRPFLLIVDSKEALIGPSSEEEETYALYTENPALVLLAREYFRHDIYL 126
TrmB pfam01978
Sugar-specific transcriptional regulator TrmB; One member of this family, TrmB, has been shown ...
 8-74 1.27e-25

Sugar-specific transcriptional regulator TrmB; One member of this family, TrmB, has been shown to be a sugar-specific transcriptional regulator of the trehalose/maltose ABC transporter in Thermococcus litoralis.


Pssm-ID: 396525 [Multi-domain]  Cd Length: 67  Bit Score: 96.05  E-value: 1.27e-25
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 446265532    8 LQKLGFSQYECKAYIGLLKHSPVTGYEVSKQTGVPRSMIYEVLGKLMDKGAVHIVPSEPVKYVSVPA 74
Cdd:pfam01978   1 LQKLGLSEYEAKVYLALLKLGPATADEIAEESGVPRSKVYEVLRSLEDKGLVEREKGRPKKYRAVDP 67
 
Name Accession Description Interval E-value
YrhO COG1378
Sugar-specific transcriptional regulator TrmB [Transcription];
3-235 1.36e-54

Sugar-specific transcriptional regulator TrmB [Transcription];


Pssm-ID: 440988 [Multi-domain]  Cd Length: 238  Bit Score: 176.36  E-value: 1.36e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446265532   3 EIIKELQKLGFSQYECKAYIGLLKHSPVTGYEVSKQTGVPRSMIYEVLGKLMDKGAVHIVPSEPVKYVSVPATELMNRMR 82
Cdd:COG1378    1 ELIELLEKLGLSEYEAKVYLALLELGPATASELAKASGVPRSRVYDVLESLEEKGLVEVSEGRPKRYRAVPPEEALERLL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446265532  83 KDFEKSFEFLDEKLNCLEQE---RQIDVISHIRSNDRVLKEICNIINRAKEELWISVWEDQV--HEIEPYIHQKEEEGVH 157
Cdd:COG1378   81 EEREEELEELREELEELYEElrePEEELVWVVKGREAILERLRELIASAEEEILIVLSPPELllEELEEALEEALERGVK 160

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 446265532 158 IFSILFGAPETKIGATFHHNymtpHVVEKRMGGHLTVIARDGEEVLIANFSNDSTSWAVTTYDPALVLVATEYVRHDI 235
Cdd:COG1378  161 VRVLVSPEVLEVPERLEEEG----EEVRVLPGLPGRLLIVDDKEALISVSEPDGEETAIWIEDPELAALLRELFETLW 234
PLDc_like_TrmB_middle cd09124
Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; ...
 108-237 8.50e-29

Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Middle phospholipase D (PLD)-like domain of the transcriptional regulator TrmB and similar proteins. TrmB acts as a bifunctional sugar-sensing transcriptional regulator which controls two operons encoding maltose/trehalose and maltodextrin ABC transporters of Pyrococcus fruiosus. It functions as a dimer. Full length TrmB includes an N-terminal DNA-binding domain, a C-terminal sugar-binding domain and middle region that has been named as a PLD-like domain. The middle domain displays homology to PLD enzymes, which contain one or two HKD motifs (H-x-K-x(4)-D, where x represents any amino acid residue) per chain. The HKD motif characterizes the PLD superfamily. Due to the lack of key residues related to PLD activity in the PLD-like domain, members of this subfamily are unlikely to carry PLD activity.


Pssm-ID: 197223 [Multi-domain]  Cd Length: 126  Bit Score: 106.26  E-value: 8.50e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446265532 108 ISHIRSNDRVLKEICNIINRAKEELWISVWEDQVHEIEPYIHQKEEEGVHIFSILFGAPETKigatfhHNYMTPHVVEKR 187
Cdd:cd09124    2 VWTIKGEENILAKIREMINSAKEEIYISLPSEELEELLEELEKAAERGVKVVIIIFGDDDLD------DLDSPAIEVRVR 75

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 446265532 188 M-GGHLTVIARDGEEVLIANFSNDSTSWAVTTYDPALVLVATEYVRHDIMV 237
Cdd:cd09124   76 EgGGRPFLLIVDSKEALIGPSSEEEETYALYTENPALVLLAREYFRHDIYL 126
TrmB pfam01978
Sugar-specific transcriptional regulator TrmB; One member of this family, TrmB, has been shown ...
 8-74 1.27e-25

Sugar-specific transcriptional regulator TrmB; One member of this family, TrmB, has been shown to be a sugar-specific transcriptional regulator of the trehalose/maltose ABC transporter in Thermococcus litoralis.


Pssm-ID: 396525 [Multi-domain]  Cd Length: 67  Bit Score: 96.05  E-value: 1.27e-25
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 446265532    8 LQKLGFSQYECKAYIGLLKHSPVTGYEVSKQTGVPRSMIYEVLGKLMDKGAVHIVPSEPVKYVSVPA 74
Cdd:pfam01978   1 LQKLGLSEYEAKVYLALLKLGPATADEIAEESGVPRSKVYEVLRSLEDKGLVEREKGRPKKYRAVDP 67
COG3355 COG3355
Predicted transcriptional regulator [Transcription];
11-104 2.29e-04

Predicted transcriptional regulator [Transcription];


Pssm-ID: 442583 [Multi-domain]  Cd Length: 131  Bit Score: 40.33  E-value: 2.29e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446265532  11 LGFSQYECKAYIGLLKHS-PVTGYEVSKQTGVPRSMIYEVLGKLMDKGAV--HIVPSE----PVKYVSVPATELMNRMRK 83
Cdd:COG3355   23 YGLSETDAEVYLILLENGePLTVEELAEALDRSRSTVYRSLQKLLEAGLVerEKRNLEgggyPYVYYAIDPEELKEKLVD 102

                         90       100
                 ....*....|....*....|.
gi 446265532  84 DFEKSFEFLDEKLNCLEQERQ 104
Cdd:COG3355  103 DLDEWYEKVGELIEEFEEEKA 123
Regulator_TrmB pfam11495
Archaeal transcriptional regulator TrmB; TrmB is an alpha-glucoside sensing transcriptional ...
 108-271 3.02e-04

Archaeal transcriptional regulator TrmB; TrmB is an alpha-glucoside sensing transcriptional regulator. The protein is the transcriptional repressor for gene cluster encoding trehalose/maltose ABC transporter in T.litoralis and P.furiosus. TrmB has lost its DNA binding domain but retained its sugar recognition site. A nonreducing glucosyl residue is shared by all substrates bound to TrmB which suggests that its a common recognition motif.


Pssm-ID: 402893  Cd Length: 233  Bit Score: 41.12  E-value: 3.02e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446265532  108 ISHIRSNDRVLKEICNIINRAKEELWISVWEDQVHEIEPYIHQKEEEGVHIFSILFGAPETKIGATFhHNYMtphVVEKR 187
Cdd:pfam11495   2 LWVIKSRDTIIERIEELIESAENELIVSLPPEFLRYLREYLIAAIDRGVLVYLVIYPDPDLPELDYE-ENAT---VVRVR 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446265532  188 MGGHLTVIARDGEEVLIA---NFSNDSTSWAVTTYDPALVLVATEYVRHDI--MVEEITKEFGADK-------------L 249
Cdd:pfam11495  78 RGGAPLLVIADRKRGVVAprrMLRTDSERYAYIFDESTLIHVLSHYFLTNLwsTSEVIKVDFPVPFprtftairfavedI 157

                         170       180
                  ....*....|....*....|....*....
gi 446265532  250 DTLWRENIDLVHVVTGK-------RTLEG 271
Cdd:pfam11495 158 KLLLRAGLRIYATVTGRltetgeeVTIEG 186
PLDc_unchar1_1 cd09127
Putative catalytic domain, repeat 1, of uncharacterized phospholipase D-like proteins; ...
 115-247 5.09e-04

Putative catalytic domain, repeat 1, of uncharacterized phospholipase D-like proteins; Putative catalytic domain, repeat 1, of uncharacterized phospholipase D (PLD, EC 3.1.4.4)-like proteins. PLD enzymes hydrolyze phospholipid phosphodiester bonds to yield phosphatidic acid and a free polar head group. They can also catalyze transphosphatidylation of phospholipids to acceptor alcohols. Members of this subfamily contain two HKD motifs (H-x-K-x(4)-D, where x represents any amino acid residue) that characterizes the PLD superfamily. The two motifs may be part of the active site and may be involved in phosphatidyl group transfer.


Pssm-ID: 197225 [Multi-domain]  Cd Length: 141  Bit Score: 39.55  E-value: 5.09e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446265532 115 DRVLKEICNIINRAKEELWISVWEDQVHEIEPYIHQKEEEGVHIFSILFGAPETKI---GATFhhNYMTPHVVE-KRMGG 190
Cdd:cd09127    7 DDGVAPVVDAIASAKRSILLKMYEFTDPALEKALAAAAKRGVRVRVLLEGGPVGGIsraEKLL--DYLNEAGVEvRWTNG 84

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446265532 191 -------HLTVIARDGEEVLIA--NFSNDSTS----WAVTTYDPAlvlvateyvrhdiMVEEITKEFGAD 247
Cdd:cd09127   85 taryrytHAKYIVVDDERALVLteNFKPSGFTgtrgFGVVTDDPA-------------VVAEIADVFDAD 141
 
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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