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Conserved domains on  [gi|2154627334|ref|WP_229597883|]
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MULTISPECIES: winged helix-turn-helix domain-containing protein [Serratia]

Protein Classification

winged helix-turn-helix domain-containing protein( domain architecture ID 10007860)

winged helix-turn-helix (wHTH) domain-containing protein binds DNA and may function as a transcriptional regulator

CATH:  1.10.10.10
Gene Ontology:  GO:0003677
PubMed:  10473770|8831795|15808743
SCOP:  3000034

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CadC1 COG3710
DNA-binding winged helix-turn-helix (wHTH) domain [Transcription];
9-86 6.20e-21

DNA-binding winged helix-turn-helix (wHTH) domain [Transcription];


:

Pssm-ID: 442924 [Multi-domain]  Cd Length: 106  Bit Score: 84.18  E-value: 6.20e-21
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2154627334   9 PQPLTATLNRLLSALVRNNNLVVSRDTLLTQVWEahGQVASGNNLNNTISILRKMFAAMGED-DIIVTLPRQGFMFTAA 86
Cdd:COG3710    23 PVRLSPRAFDLLLLLLEHPGRVVSRDELLAAVWP--GRVVSDNSLTQAISRLRKALGDDGLEpRLIRTVPRRGYRLVAP 99
 
Name Accession Description Interval E-value
CadC1 COG3710
DNA-binding winged helix-turn-helix (wHTH) domain [Transcription];
9-86 6.20e-21

DNA-binding winged helix-turn-helix (wHTH) domain [Transcription];


Pssm-ID: 442924 [Multi-domain]  Cd Length: 106  Bit Score: 84.18  E-value: 6.20e-21
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2154627334   9 PQPLTATLNRLLSALVRNNNLVVSRDTLLTQVWEahGQVASGNNLNNTISILRKMFAAMGED-DIIVTLPRQGFMFTAA 86
Cdd:COG3710    23 PVRLSPRAFDLLLLLLEHPGRVVSRDELLAAVWP--GRVVSDNSLTQAISRLRKALGDDGLEpRLIRTVPRRGYRLVAP 99
Trans_reg_C smart00862
Transcriptional regulatory protein, C terminal; This domain is almost always found associated ...
 11-83 6.67e-14

Transcriptional regulatory protein, C terminal; This domain is almost always found associated with the response regulator receiver domain. It may play a role in DNA binding.


Pssm-ID: 214866 [Multi-domain]  Cd Length: 76  Bit Score: 64.88  E-value: 6.67e-14
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2154627334   11 PLTATLNRLLSALVRNNNLVVSRDTLLTQVWEAHGQVASgNNLNNTISILRKMFAAMGEDDIIVTLPRQGFMF 83
Cdd:smart00862   5 KLTPKEFRLLELLLRNPGRVVSREELLEAVWGDDEDVDD-NTLDVHISRLRKKLEDDGDPRLIETVRGVGYRL 76
trans_reg_C cd00383
DNA-binding effector domain of two-component system response regulators; Bacteria and some ...
 11-83 2.43e-13

DNA-binding effector domain of two-component system response regulators; Bacteria and some eukaryotes use two-component signal transduction systems to detect and respond to changes in the environment. The systems consists of a sensor histidine kinase and a response regulator. The former autophosphorylates a histidine residue on detecting an external stimulus. The phosphate is then transferred to an invariant aspartate residue in a highly conserved receiver domain of the response regulator. Phosphorylation activates a variable effector domain of the response regulator, which triggers the cellular response. This C-terminal effector domain belongs to the winged helix-turn-helix family of transcriptional regulators and contains DNA and RNA polymerase binding sites. Several dimers or monomers bind head to tail to small tandem repeats upstream of the genes. The RNA polymerase binding sites interact with the alpha or sigma subunit of RNA polymerase.


Pssm-ID: 294013 [Multi-domain]  Cd Length: 89  Bit Score: 63.65  E-value: 2.43e-13
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2154627334  11 PLTATLNRLLSALVRNNNLVVSRDTLLTQVWEaHGQVASGNNLNNTISILRKMFAAMGEDDIIVTLPRQGFMF 83
Cdd:cd00383    18 ELTPKEFELLELLARNPGRVVSREELLEAVWG-YDYEVDDRTVDVHISRLRKKLEDDPEPRLIKTVRGVGYRL 89
Trans_reg_C pfam00486
Transcriptional regulatory protein, C terminal;
11-83 6.15e-12

Transcriptional regulatory protein, C terminal;


Pssm-ID: 425712 [Multi-domain]  Cd Length: 77  Bit Score: 59.45  E-value: 6.15e-12
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2154627334  11 PLTATLNRLLSALVRNNNLVVSRDTLLTQVWEAHGQVASgNNLNNTISILRKMFAAMGED-DIIVTLPRQGFMF 83
Cdd:pfam00486   5 ELTPKEFKLLELLAENPGRVVSREQLLEEVWGEDYDVDD-NTVDVHISRLRKKLEDDPRDpRLIKTVRGVGYRL 77
PRK12370 PRK12370
HilA/EilA family virulence transcriptional regulator;
7-119 2.06e-04

HilA/EilA family virulence transcriptional regulator;


Pssm-ID: 237080 [Multi-domain]  Cd Length: 553  Bit Score: 42.15  E-value: 2.06e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2154627334   7 LPPQPLTatlnrLLSALVRNNNLVVSRDTLLTQVWEAhgQVASGNNLNNTISILRKMFAAMGEDDIIVTLPRQGFMFTAA 86
Cdd:PRK12370   36 IPPKEYA-----VLVILLEAAGEIVSKNTLLDQVWGD--AEVNEESLTRCIYALRRILSEDKEHRYIETLYGQGYRFNRP 108

                          90       100       110
                  ....*....|....*....|....*....|...
gi 2154627334  87 SLKTTDslaeslpemPSPAAAENALPTRPLRTQ 119
Cdd:PRK12370  109 VVVVSP---------PAPQPTTHTLAILPFQMQ 132
 
Name Accession Description Interval E-value
CadC1 COG3710
DNA-binding winged helix-turn-helix (wHTH) domain [Transcription];
9-86 6.20e-21

DNA-binding winged helix-turn-helix (wHTH) domain [Transcription];


Pssm-ID: 442924 [Multi-domain]  Cd Length: 106  Bit Score: 84.18  E-value: 6.20e-21
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2154627334   9 PQPLTATLNRLLSALVRNNNLVVSRDTLLTQVWEahGQVASGNNLNNTISILRKMFAAMGED-DIIVTLPRQGFMFTAA 86
Cdd:COG3710    23 PVRLSPRAFDLLLLLLEHPGRVVSRDELLAAVWP--GRVVSDNSLTQAISRLRKALGDDGLEpRLIRTVPRRGYRLVAP 99
Trans_reg_C smart00862
Transcriptional regulatory protein, C terminal; This domain is almost always found associated ...
 11-83 6.67e-14

Transcriptional regulatory protein, C terminal; This domain is almost always found associated with the response regulator receiver domain. It may play a role in DNA binding.


Pssm-ID: 214866 [Multi-domain]  Cd Length: 76  Bit Score: 64.88  E-value: 6.67e-14
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2154627334   11 PLTATLNRLLSALVRNNNLVVSRDTLLTQVWEAHGQVASgNNLNNTISILRKMFAAMGEDDIIVTLPRQGFMF 83
Cdd:smart00862   5 KLTPKEFRLLELLLRNPGRVVSREELLEAVWGDDEDVDD-NTLDVHISRLRKKLEDDGDPRLIETVRGVGYRL 76
trans_reg_C cd00383
DNA-binding effector domain of two-component system response regulators; Bacteria and some ...
 11-83 2.43e-13

DNA-binding effector domain of two-component system response regulators; Bacteria and some eukaryotes use two-component signal transduction systems to detect and respond to changes in the environment. The systems consists of a sensor histidine kinase and a response regulator. The former autophosphorylates a histidine residue on detecting an external stimulus. The phosphate is then transferred to an invariant aspartate residue in a highly conserved receiver domain of the response regulator. Phosphorylation activates a variable effector domain of the response regulator, which triggers the cellular response. This C-terminal effector domain belongs to the winged helix-turn-helix family of transcriptional regulators and contains DNA and RNA polymerase binding sites. Several dimers or monomers bind head to tail to small tandem repeats upstream of the genes. The RNA polymerase binding sites interact with the alpha or sigma subunit of RNA polymerase.


Pssm-ID: 294013 [Multi-domain]  Cd Length: 89  Bit Score: 63.65  E-value: 2.43e-13
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2154627334  11 PLTATLNRLLSALVRNNNLVVSRDTLLTQVWEaHGQVASGNNLNNTISILRKMFAAMGEDDIIVTLPRQGFMF 83
Cdd:cd00383    18 ELTPKEFELLELLARNPGRVVSREELLEAVWG-YDYEVDDRTVDVHISRLRKKLEDDPEPRLIKTVRGVGYRL 89
Trans_reg_C pfam00486
Transcriptional regulatory protein, C terminal;
11-83 6.15e-12

Transcriptional regulatory protein, C terminal;


Pssm-ID: 425712 [Multi-domain]  Cd Length: 77  Bit Score: 59.45  E-value: 6.15e-12
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2154627334  11 PLTATLNRLLSALVRNNNLVVSRDTLLTQVWEAHGQVASgNNLNNTISILRKMFAAMGED-DIIVTLPRQGFMF 83
Cdd:pfam00486   5 ELTPKEFKLLELLAENPGRVVSREQLLEEVWGEDYDVDD-NTVDVHISRLRKKLEDDPRDpRLIKTVRGVGYRL 77
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 9-75 9.20e-06

DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain [Signal transduction mechanisms, Transcription];


Pssm-ID: 440508 [Multi-domain]  Cd Length: 204  Bit Score: 44.95  E-value: 9.20e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2154627334   9 PQPLTATLNRLLSALVRNNNLVVSRDTLLTQVWeaHGQVASGNNLNNTISILRKMFaamgEDDIIVT 75
Cdd:COG0745   144 PVELTPKEFRLLELLMRNPGRVVSREQLLEEVW--GYDYGDDRTVDVHISRLRKKL----EDDLIET 204
DnrI COG3629
DNA-binding transcriptional regulator DnrI/AfsR/EmbR, SARP family, contains BTAD domain ...
 18-75 1.02e-04

DNA-binding transcriptional regulator DnrI/AfsR/EmbR, SARP family, contains BTAD domain [Transcription];


Pssm-ID: 442847 [Multi-domain]  Cd Length: 244  Bit Score: 42.13  E-value: 1.02e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2154627334  18 RLLSALVRNNNLVVSRDTLLTQVWEAHGQVASGNNLNNTISILRKMFAAmGEDDIIVT 75
Cdd:COG3629    28 ALLAYLALRAGRPVSRDRLADLLWGDDPPASARANLRTYVSRLRRALGP-AGGDLLVT 84
PRK12370 PRK12370
HilA/EilA family virulence transcriptional regulator;
7-119 2.06e-04

HilA/EilA family virulence transcriptional regulator;


Pssm-ID: 237080 [Multi-domain]  Cd Length: 553  Bit Score: 42.15  E-value: 2.06e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2154627334   7 LPPQPLTatlnrLLSALVRNNNLVVSRDTLLTQVWEAhgQVASGNNLNNTISILRKMFAAMGEDDIIVTLPRQGFMFTAA 86
Cdd:PRK12370   36 IPPKEYA-----VLVILLEAAGEIVSKNTLLDQVWGD--AEVNEESLTRCIYALRRILSEDKEHRYIETLYGQGYRFNRP 108

                          90       100       110
                  ....*....|....*....|....*....|...
gi 2154627334  87 SLKTTDslaeslpemPSPAAAENALPTRPLRTQ 119
Cdd:PRK12370  109 VVVVSP---------PAPQPTTHTLAILPFQMQ 132
PRK10816 PRK10816
two-component system response regulator PhoP;
12-83 3.40e-04

two-component system response regulator PhoP;


Pssm-ID: 182755 [Multi-domain]  Cd Length: 223  Bit Score: 40.49  E-value: 3.40e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2154627334  12 LTATLNRLLSALVRNNNLVVSRDTLLTQVW------EAHgqvasgnnlnnTISI----LRKMFAAMGEDDIIVTLPRQGF 81
Cdd:PRK10816  150 LTAFEYTIMETLIRNNGKVVSKDSLMLQLYpdaelrESH-----------TIDVlmgrLRKKIQAQYPQEVITTVRGQGY 218


                  ..
gi 2154627334  82 MF 83
Cdd:PRK10816  219 RF 220
PRK10153 PRK10153
DNA-binding transcriptional activator CadC; Provisional
 19-115 7.81e-04

DNA-binding transcriptional activator CadC; Provisional


Pssm-ID: 236658 [Multi-domain]  Cd Length: 517  Bit Score: 40.41  E-value: 7.81e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2154627334  19 LLSALVRNNNLVVSRDTLLTQVWEahGQVASGNNLNNTISILRKMFAAMGED--DIIVTLPRQGFMFTAASLKTTDSLAE 96
Cdd:PRK10153   36 LLVFFAQHSGEVLSRDELIDHVWD--RAIVTDHVVTQSISELRKSLKDGREDnpEYIVTVPKRGYKLVAPVIWYSEEEGE 113

                          90       100
                  ....*....|....*....|
gi 2154627334  97 SLP-EMPSPAAAENALPTRP 115
Cdd:PRK10153  114 EILaSSPPPIPEAVPATAEP 133
PRK11906 PRK11906
HilA family transcriptional regulator YgeH;
7-90 3.98e-03

HilA family transcriptional regulator YgeH;


Pssm-ID: 183373 [Multi-domain]  Cd Length: 458  Bit Score: 38.11  E-value: 3.98e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2154627334   7 LPPQPLTatlnrLLSALVRNNNLVVSRDTLLTQVWEahGQVASGNNLNNTISILRKMFAAMGEDDIIVTLPRQGFMFTAA 86
Cdd:PRK11906   32 IPQKELG-----VLIVLLESAGHVVLKDMIIESVWK--NIIVSDESLTRCIYSLRCIFEKIGYDRCIETIYRKGYRFSGQ 104


                  ....
gi 2154627334  87 SLKT 90
Cdd:PRK11906  105 VFKT 108
 
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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