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Conserved domains on  [gi|565851155|ref|WP_023933811|]
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metalloregulator ArsR/SmtB family transcription factor [Photobacterium leiognathi]

Protein Classification

helix-turn-helix transcriptional regulator( domain architecture ID 11457150)

helix-turn-helix (HTH) transcriptional regulator containing a DNA-binding HTH domain, may act as a transcriptional activator or as a transcriptional repressor

Gene Ontology:  GO:0003677|GO:0003700|GO:0006355
PubMed:  15808743|10473770|8831795

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
COG2345 COG2345
Predicted transcriptional regulator, ArsR family [Transcription];
3-205 2.54e-80

Predicted transcriptional regulator, ArsR family [Transcription];


:

Pssm-ID: 441914 [Multi-domain]  Cd Length: 217  Bit Score: 238.67  E-value: 2.54e-80
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 565851155   3 TIEKILYHLKSEGPVTAKVLAEKFELTTMGIRQHLQGLEEDGLVDFTDVKVKVGRPTRHWQLTEKGHRRFADRHHDLAVH 82
Cdd:COG2345   14 TRRRILELLKRAGPVTAAELAEALGLTPNAVRRHLDALEEEGLVERETERRGRGRPAKLYRLTEAGRARFPRAYDDLAVA 93

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 565851155  83 MLESVEDLFGKAGLDQVIAKREQQTYLHYQQALSSCENLDDKLARLAQLRAQDGYMAELITTENGYTLVENHCPICRAAQ 162
Cdd:COG2345   94 LLDALRELLGEDAVERLARARGRRLAARYRPALAGAGSLEERLEALAELLSEEGYMAEVEEEDDGFQLCEHNCPFLEVAE 173

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|...
gi 565851155 163 HCPTLCQSELTVFQRLLGDDVSiERQEHIISGQRRCTYRITLS 205
Cdd:COG2345  174 EHPVVCELELGLFEGLLGALVA-ERTATLADGDRRCTYRIPPR 215
 
Name Accession Description Interval E-value
COG2345 COG2345
Predicted transcriptional regulator, ArsR family [Transcription];
3-205 2.54e-80

Predicted transcriptional regulator, ArsR family [Transcription];


Pssm-ID: 441914 [Multi-domain]  Cd Length: 217  Bit Score: 238.67  E-value: 2.54e-80
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 565851155   3 TIEKILYHLKSEGPVTAKVLAEKFELTTMGIRQHLQGLEEDGLVDFTDVKVKVGRPTRHWQLTEKGHRRFADRHHDLAVH 82
Cdd:COG2345   14 TRRRILELLKRAGPVTAAELAEALGLTPNAVRRHLDALEEEGLVERETERRGRGRPAKLYRLTEAGRARFPRAYDDLAVA 93

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 565851155  83 MLESVEDLFGKAGLDQVIAKREQQTYLHYQQALSSCENLDDKLARLAQLRAQDGYMAELITTENGYTLVENHCPICRAAQ 162
Cdd:COG2345   94 LLDALRELLGEDAVERLARARGRRLAARYRPALAGAGSLEERLEALAELLSEEGYMAEVEEEDDGFQLCEHNCPFLEVAE 173

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|...
gi 565851155 163 HCPTLCQSELTVFQRLLGDDVSiERQEHIISGQRRCTYRITLS 205
Cdd:COG2345  174 EHPVVCELELGLFEGLLGALVA-ERTATLADGDRRCTYRIPPR 215
PadR pfam03551
Transcriptional regulator PadR-like family; Members of this family are transcriptional ...
 7-73 6.16e-05

Transcriptional regulator PadR-like family; Members of this family are transcriptional regulators that appear to be related to the pfam01047 family. This family includes PadR, a protein that is involved in negative regulation of phenolic acid metabolism.


Pssm-ID: 397561  Cd Length: 74  Bit Score: 39.92  E-value: 6.16e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 565851155    7 ILYHLkSEGPVTAKVLAEKFELTTMGIRQ--------HLQGLEEDGLVDFTDVKVKVGRPTRHWQLTEKGHRRFA 73
Cdd:pfam03551   1 VLAVL-GEQPRYGYEIIKELEELSGGFWRpsegtlypILKRLEKEGLVESEWVDSGGGPPRKYYRLTDAGRRELA 74
HTH_ARSR cd00090
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 2-69 1.28e-03

Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.


Pssm-ID: 238042 [Multi-domain]  Cd Length: 78  Bit Score: 36.51  E-value: 1.28e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 565851155   2 KTIEKILYHLKsEGPVTAKVLAEKFELTTMGIRQHLQGLEEDGLVdftdVKVKVGRpTRHWQLTEKGH 69
Cdd:cd00090    7 PTRLRILRLLL-EGPLTVSELAERLGLSQSTVSRHLKKLEEAGLV----ESRREGR-RVYYSLTDAER 68
HTH_ARSR smart00418
helix_turn_helix, Arsenical Resistance Operon Repressor;
6-66 2.86e-03

helix_turn_helix, Arsenical Resistance Operon Repressor;


Pssm-ID: 197713 [Multi-domain]  Cd Length: 66  Bit Score: 35.26  E-value: 2.86e-03
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 565851155     6 KILYHLkSEGPVTAKVLAEKFELTTMGIRQHLQGLEEDGLVdftdVKVKVGRpTRHWQLTE 66
Cdd:smart00418   1 KILKLL-AEGELCVCELAEILGLSQSTVSHHLKKLREAGLV----ESRREGK-RVYYSLTD 55
 
Name Accession Description Interval E-value
COG2345 COG2345
Predicted transcriptional regulator, ArsR family [Transcription];
3-205 2.54e-80

Predicted transcriptional regulator, ArsR family [Transcription];


Pssm-ID: 441914 [Multi-domain]  Cd Length: 217  Bit Score: 238.67  E-value: 2.54e-80
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 565851155   3 TIEKILYHLKSEGPVTAKVLAEKFELTTMGIRQHLQGLEEDGLVDFTDVKVKVGRPTRHWQLTEKGHRRFADRHHDLAVH 82
Cdd:COG2345   14 TRRRILELLKRAGPVTAAELAEALGLTPNAVRRHLDALEEEGLVERETERRGRGRPAKLYRLTEAGRARFPRAYDDLAVA 93

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 565851155  83 MLESVEDLFGKAGLDQVIAKREQQTYLHYQQALSSCENLDDKLARLAQLRAQDGYMAELITTENGYTLVENHCPICRAAQ 162
Cdd:COG2345   94 LLDALRELLGEDAVERLARARGRRLAARYRPALAGAGSLEERLEALAELLSEEGYMAEVEEEDDGFQLCEHNCPFLEVAE 173

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|...
gi 565851155 163 HCPTLCQSELTVFQRLLGDDVSiERQEHIISGQRRCTYRITLS 205
Cdd:COG2345  174 EHPVVCELELGLFEGLLGALVA-ERTATLADGDRRCTYRIPPR 215
MarR COG1846
DNA-binding transcriptional regulator, MarR family [Transcription];
7-101 1.54e-05

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


Pssm-ID: 441451 [Multi-domain]  Cd Length: 142  Bit Score: 43.03  E-value: 1.54e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 565851155   7 ILYHLKSEGPVTAKVLAEKFELTTMGIRQHLQGLEEDGLV----DFTDvkvkvgRPTRHWQLTEKGhRRFADRHHDLAVH 82
Cdd:COG1846   43 VLAALAEAGGLTQSELAERLGLTKSTVSRLLDRLEEKGLVerepDPED------RRAVLVRLTEKG-RALLEEARPALEA 115

                         90
                 ....*....|....*....
gi 565851155  83 MLESVEDLFGKAGLDQVIA 101
Cdd:COG1846  116 LLAELLAGLSEEELEALLR 134
COG1693 COG1693
Repressor of nif and glnA expression [Transcription];
1-70 3.44e-05

Repressor of nif and glnA expression [Transcription];


Pssm-ID: 441299 [Multi-domain]  Cd Length: 327  Bit Score: 43.36  E-value: 3.44e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 565851155   1 MKTIE--KILYhlKSEGPVTAKVLAEK-----FELTTMGIRQHLQGLEEDGLVDftdvkvKVGRPTRhwQLTEKGHR 70
Cdd:COG1693    7 RKLIEilRILS--ESDEPIGSRRIADElqergYDISERTVRYHLRILDERGLTK------KVGYKGR--RLTEKGRK 73
PadR pfam03551
Transcriptional regulator PadR-like family; Members of this family are transcriptional ...
 7-73 6.16e-05

Transcriptional regulator PadR-like family; Members of this family are transcriptional regulators that appear to be related to the pfam01047 family. This family includes PadR, a protein that is involved in negative regulation of phenolic acid metabolism.


Pssm-ID: 397561  Cd Length: 74  Bit Score: 39.92  E-value: 6.16e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 565851155    7 ILYHLkSEGPVTAKVLAEKFELTTMGIRQ--------HLQGLEEDGLVDFTDVKVKVGRPTRHWQLTEKGHRRFA 73
Cdd:pfam03551   1 VLAVL-GEQPRYGYEIIKELEELSGGFWRpsegtlypILKRLEKEGLVESEWVDSGGGPPRKYYRLTDAGRRELA 74
HTH_11 pfam08279
HTH domain; This family includes helix-turn-helix domains in a wide variety of proteins.
 5-45 8.49e-05

HTH domain; This family includes helix-turn-helix domains in a wide variety of proteins.


Pssm-ID: 429896 [Multi-domain]  Cd Length: 52  Bit Score: 38.95  E-value: 8.49e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 565851155    5 EKILYHL-KSEGPVTAKVLAEKFELTTMGIRQHLQGLEEDGL 45
Cdd:pfam08279   1 LQILQLLlEARGPISGQELAEKLGVSRRTIRRDIKILEELGV 42
GlpR COG1349
DNA-binding transcriptional regulator of sugar metabolism, DeoR/GlpR family [Transcription, ...
 1-46 3.78e-04

DNA-binding transcriptional regulator of sugar metabolism, DeoR/GlpR family [Transcription, Carbohydrate transport and metabolism];


Pssm-ID: 440960 [Multi-domain]  Cd Length: 254  Bit Score: 40.12  E-value: 3.78e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 565851155   1 MKTIE---KILYHLKSEGPVTAKVLAEKFELTTMGIRQHLQGLEEDGLV 46
Cdd:COG1349    1 MLAEErrqKILELLRERGRVSVEELAERLGVSEETIRRDLAELEEQGLL 49
PadR COG1695
DNA-binding transcriptional regulator, PadR family [Transcription];
7-89 3.88e-04

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


Pssm-ID: 441301  Cd Length: 102  Bit Score: 38.38  E-value: 3.88e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 565851155   7 ILYHLkSEGPVTAKVLAEKFELTTMGIRQ--------HLQGLEEDGLVDFTDVKVKVGRPTRHWQLTEKGHRRFADRHHD 78
Cdd:COG1695   14 ILALL-AEGPMYGYEIIKELEERSGGFWKvsegtlypALKRLEKEGLVESEWEESEGGPRRKYYRLTEAGREELAEWLEE 92

                         90
                 ....*....|.
gi 565851155  79 LAvHMLESVED 89
Cdd:COG1695   93 WE-KLAEALEA 102
COG1777 COG1777
Predicted transcriptional regulator, ArsR family [Transcription];
6-67 4.40e-04

Predicted transcriptional regulator, ArsR family [Transcription];


Pssm-ID: 441383  Cd Length: 113  Bit Score: 38.48  E-value: 4.40e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 565851155   6 KILYHLkSEGPVTAKVLAEKFELTTMGIRQHLQGLEEDGLVDFTDVKVKVGRPTRHWQLTEK 67
Cdd:COG1777   21 RILALL-SEEPAYVSELARELGVSRQAVYKHLRKLEEAGLVESYREGREDGRARKYYRLSAF 81
HTH_12 pfam08461
Ribonuclease R winged-helix domain; This domain is found at the amino terminus of Ribonuclease ...
 5-68 1.07e-03

Ribonuclease R winged-helix domain; This domain is found at the amino terminus of Ribonuclease R and a number of presumed transcriptional regulatory proteins from archaebacteria.


Pssm-ID: 285637 [Multi-domain]  Cd Length: 66  Bit Score: 36.23  E-value: 1.07e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 565851155    5 EKILYHL-KSEGPVTAKVLAEKFELT-----TMGIRQHLQGLEEDGLVDftdvkvKVGRPTRhwQLTEKG 68
Cdd:pfam08461   1 EEILSILaESDAPIGAKIIAEELNLRgydigERAVRYHLRKLEERGLTR------RVGYAGR--EITEKG 62
HTH_ARSR cd00090
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 2-69 1.28e-03

Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.


Pssm-ID: 238042 [Multi-domain]  Cd Length: 78  Bit Score: 36.51  E-value: 1.28e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 565851155   2 KTIEKILYHLKsEGPVTAKVLAEKFELTTMGIRQHLQGLEEDGLVdftdVKVKVGRpTRHWQLTEKGH 69
Cdd:cd00090    7 PTRLRILRLLL-EGPLTVSELAERLGLSQSTVSRHLKKLEEAGLV----ESRREGR-RVYYSLTDAER 68
HTH_24 pfam13412
Winged helix-turn-helix DNA-binding;
2-46 1.30e-03

Winged helix-turn-helix DNA-binding;


Pssm-ID: 404317 [Multi-domain]  Cd Length: 45  Bit Score: 35.49  E-value: 1.30e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 565851155    2 KTIEKILYHLKSEGPVTAKVLAEKFELTTMGIRQHLQGLEEDGLV 46
Cdd:pfam13412   1 ETDRKILNLLQENPRISQRELAERLGLSPSTVNRRLKRLEEEGVI 45
HTH_20 pfam12840
Helix-turn-helix domain; This domain represents a DNA-binding Helix-turn-helix domain found in ...
 6-47 1.59e-03

Helix-turn-helix domain; This domain represents a DNA-binding Helix-turn-helix domain found in transcriptional regulatory proteins.


Pssm-ID: 432824 [Multi-domain]  Cd Length: 61  Bit Score: 35.59  E-value: 1.59e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 565851155    6 KILYHLKSEGPVTAKVLAEKFELTTMGIRQHLQGLEEDGLVD 47
Cdd:pfam12840  14 RILRALVGDEPLTASELARRLDISRNTLSYHLRKLEEAGLVE 55
HTH_ARSR smart00418
helix_turn_helix, Arsenical Resistance Operon Repressor;
6-66 2.86e-03

helix_turn_helix, Arsenical Resistance Operon Repressor;


Pssm-ID: 197713 [Multi-domain]  Cd Length: 66  Bit Score: 35.26  E-value: 2.86e-03
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 565851155     6 KILYHLkSEGPVTAKVLAEKFELTTMGIRQHLQGLEEDGLVdftdVKVKVGRpTRHWQLTE 66
Cdd:smart00418   1 KILKLL-AEGELCVCELAEILGLSQSTVSHHLKKLREAGLV----ESRREGK-RVYYSLTD 55
MarR_2 pfam12802
MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a ...
 7-50 4.22e-03

MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system. The expression of the mar operon is controlled by a repressor, MarR. A large number of compounds induce transcription of the mar operon. This is thought to be due to the compound binding to MarR, and the resulting complex stops MarR binding to the DNA. With the MarR repression lost, transcription of the operon proceeds. The structure of MarR is known and shows MarR as a dimer with each subunit containing a winged-helix DNA binding motif.


Pssm-ID: 432797 [Multi-domain]  Cd Length: 60  Bit Score: 34.49  E-value: 4.22e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 565851155    7 ILYHLKSEGPVTAKVLAEKFELTTMGIRQHLQGLEEDGLVDFTD 50
Cdd:pfam12802  10 VLLALARNPGLTVAELARRLGISKQTVSRLVKRLEAKGLVEREP 53
MntR COG1321
Mn-dependent transcriptional regulator MntR, DtxR family [Transcription];
6-87 5.58e-03

Mn-dependent transcriptional regulator MntR, DtxR family [Transcription];


Pssm-ID: 440932 [Multi-domain]  Cd Length: 135  Bit Score: 35.56  E-value: 5.58e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 565851155   6 KILYHL-KSEGPVTAKVLAEKFELTTMGIRQHLQGLEEDGLVDFtdvkvkvgRPTRHWQLTEKGHR--RFADRHHDLAVH 82
Cdd:COG1321   13 KAIYELsEEGGPVRTSDIAERLGVSPPSVTEMLKKLEEKGLVEY--------EPYGGITLTEEGRElaLRIVRRHRLLER 84


                 ....*
gi 565851155  83 MLESV 87
Cdd:COG1321   85 FLVEV 89
 
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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